acegid project implementation plan pdf 2014-2018

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Implementation Plan

Africa Centre of Excellence

For Genomics of Infectious

Disease

[ACE 019]

Implementation Plan

2014 – 2018

(Updated November 23, 2014)

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Implementation Plan

Table of Contents: 1. BRIEF NARRATIVE SUMMARY……………………………………………………………page: 5 2. OVERVIEW OF PLANNED OUTPUTS, ACTIVITIES AND COST………………………page: 7 FOR FIRST YEAR Table 1: Overview of first project year Table 2: Overview distribution among partners 3. TIMING OF PLANNED ACTIVITIES FOR ENTIRE PROJECT PERIOD………………..page: 8 Table 3: Work plan for the project (Gantt Chart) 4. IMPLEMENATION ARRANGEMENTS ……………………………………………………page: 15 4.1 Guiding rules and regulations 4.2 Governance structures Figure 1. Organogram 4.3 Incentive structures 4.4 Roles and responsibilities 4.5 Environment safeguards 5. PERFORMANCE MONITORING……………………………………………………………page:17 Table 4: Disbursement Linked Indicator’s 6. DETAILED BUDGET………………………………………………………………………….page:18 Table 5: Budget, 2014- 2018 with split between partners 7. DETAILED ACTIVITY SHEETS……………………………………………………………..page: 49 8. SUMMARY OF TIMING OF PLANNED ACTIVITES…………………………………….page: 50

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Abbreviations:

ACEGID: African Centre of Excellence for Genomics of Infectious Disease

EAG: External Advisory Group

FUO: Fevers of unknown origin

GHAP: Global Health Associate Program

ISTH: Irrua Specialist Teaching Hospital

KGH: Kenema Government Hospital

RUN: Redeemer’s University

UCAD: Universite Cheik Anta-Diop

UI: University of Ibadan

USL: University of Sierra Leone

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1. BRIEF NARRATIVE SUMMARY

Recent advances in genomic technologies for studying humans and microbes have the potential to transform the clinical care, surveillance, and understanding of infectious diseases. In order to truly participate in this genomic revolution, African researchers must be trained with cutting-edge genomics research capabilities, and utilize multidisciplinary approaches to carry out fully independent and high-impact education and research. Through the support of the NIH Human Heredity and Health in Africa (H3Africa) program and the World Bank, we have established the African Center of Excellence for Genomics of Infectious Disease (ACEGID) at Redeemer’s University, Nigeria, to address these challenges. The success of ACEGID is dependent on the strong and long-standing partnerships between academic, clinical, and research institutions in Nigeria, Sierra Leone, and Senegal, and collaborating with US partners at Harvard University, the Broad Institute, and Tulane University. ACEGID will establish lasting scientific capacity in genomics through education, training of African scientists, and complimentary research goals related to the detection and control of infectious diseases. The educational goals of ACEGID are to:

(1) Develop a critical mass of well-trained African genomics scientists; (2) Empower African researchers to utilize genomics-based tools towards the control and elimination

of infectious diseases; (3) Create genomics curricula to support and promote cutting-edge genomics-based research; and (4) Engage communities in prevention efforts and public health education.

ACEGID has a mandate to teach, study and understand pathogens that cause febrile illnesses in sub-Saharan Africa through microbial metagenomics—the unbiased characterization of microbial nucleic acids. Clinical diagnostics are currently unavailable for many of the pathogens that cause febrile illness, termed fevers of unknown origin (FUO), but genomic tools can enable researchers to test on-site for a wide array of known and uncharacterized microbes. The project seeks to teach new sequencing technologies and bioinformatics to discover novel pathogens, as well as develop and deploy new tools for field diagnosis of new and known microorganisms.

ACEGID’s research-related goals are focused on characterizing FUOs through microbial metagenomics by:

(1) Using field-deployed and state-of-the-art genomic technology to identify pathogens driving febrile illness; and

(2) Creating a foundation for African scientists to learn, carry out tractable and important genetic research projects entirely in country.

For the training M.Sc. and Ph.D. students; ACEGID will build state-of-the-art genome sequencing and field-deployable genetic tools for microbial infection in Africa, we can support clinical care of the most devastating diseases and enable a surveillance network for some of the world’s greatest health threats. ACEGID will establish applied research programs for African scientists to pursue high-impact projects not only to bring regional academic and research success for African science, but also to contribute to the improvement of global public health and economic development.

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2. OVERVIEW OF PLANNED OUTPUTS, ACTIVITIES AND COST FOR FIRST YEAR

Table 2: Overview of first project year (this table is closely linked to section 7, as each activity row here in table 1 will require a separate activity sheet in section 7)

Code Priority Rank

Result/Activity/Task Budget Estimate (US$)

ACE leader Partners Total

Action Plan1

(1 highest

5 lowest)

ACE action plan to achieve Learning Excellence (Component

total for ACE leader)

(Component total for partners)

(Total of component)

1.1 1 Foundational training course at Broad Institute/Harvard $55,291 $154,579 $209,870

1.2 3 On-site workshops/short-term trainings at ACEGID partner sites (RUN, ISTH, KGH, UCAD, USL, UI)

$9,844 $49,220 $59,064,00

1.3 2 Develop new M.Sc. and Ph.D. degree program in Genomics of Infectious Disease at Redeemer’s University

$33,542 - $33,542

1.4 1 Procure teaching and computer lab equipment $95,168 $80,502 $175,670

1.5 4 Professional development course - sustainable financing $37,362 $7,090 $44,452

Action Plan2

(1 highest

5 lowest)

ACE action plan to achieve Teaching & Applied Research Excellence

(Component total for

ACE leader)



2.1 1 Procure general use teaching & research equipment and lab supplies

$227,597 $79,966 $307,563

2.2 2 Develop a core team to lead the Applied genomics research lab $182,104 - $182,104

2.3 2 Enhance sequencing capacity and field deployable tool creation $201,720 $75,000 $276,720

2.4 3 Training of safety officer $47,500 $15,000 $62,500

2.5 3 Training of security and safety personnel $41,500 $15,000 $56,500

2.6 4 Field-site Monitoring and Support: vehicle purchase & maintenance $56,000 - $56,000

2.7 5 Support for international conference presentations and manuscript publication

$10,000 $20,000 $30,000

Action Plan3

(1 highest

5 lowest)

ACE action for attracting Regional Faculty and Students (Component




3.1 1 Educational and outreach program - Provide informational outreach/ marketing to potential female students, and underserved communities

$97,800 $9,000 $106,800

3.2 1 Facilitate national and regional student exchange program $120,000 - 120,000

3.3 2 Facilitate broad regional student attendance - language support (Establishment of a English language proficiency centre for Francophone Africans) centre support and for relocating.

$100,000 - $100,000

3.4 2 Organize short courses for students and regional faculty, sector organizations, and governments - short term training of working professionals.

$100,000 - $100,000

Action Plan4

(1 highest

5 lowest)

ACE action for Collaboration with International Partners (Component




4.1 1 Institutionalize faculty exchange programs between RUN, USL, and UCAD, University of Ibadan, and US-based institutions.

$112,000 $4,000 $116,000

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Action Plan5

(1 highest

5 lowest)

ACE action plan for ACEGID Teaching infrastructure (Component




5.1 1 Genomics teaching lab redesign and remodel – current Redeemer’s campus

$40,000 - $40,000

5.2 2 Design of ACEGID Center – teaching and research lab $50,000 - $50,000

5.3 2 Develop and equip a service core facility within the ACEGID centre-Sustainable financing

$1,600,000 - $1,600,00

Sub-total $3,217,428 $509,357 $3,726,785

Contingency $15,000 $25,000 $40,000

TOTAL BUDGET $3,232,428 $534,357 $3,766,,785

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Table 2: Overview distribution among partners

Code Result/Activity/Task Budget Estimate (US$) Irrua Specialist Teaching Hospital

Univ of Sierra Leone

Kenema Gov’t Hospital

Universite Cheik Anta-Diop

University of Ibadan

Broad Institute

Total Partner Budget

Action Plan1

(Expected output) $41,670.2 $41,670.2 $41,670.2 $41,670.2 $41,670.2 $83,040 $291,391

1 ACE Action Plan to achieve Learning Excellence

1.1. Foundational training course at Broad Institute/Harvard

$14,307.80 $14,307.80 $14,307.80 $14,307.80 $14,307.80 $83,040 $154,579

1.2. - On-site workshops/short-term trainings at ACEGID partner sites (ISTH, KGH, UCAD, USL, UI)

$9,844 $9,844 $9,844 $9,844 $9,844 0 $49,220

- - - - - - - 1.3 - Procure teaching and computer lab equipment

$16,100.4 $16,100.4 $16,100.4 $16,100.4 $16,100.4 - $80,502

1.4 - Evaluation of education programs

- - - - - - -

1.5 - Professional development course - sustainable financing

$1,418 $1,418 $1,418 $1,418 $1,418 - $7,090

Action Plan2

(Expected output) $40,993.2 $40,993.2 $40,993.2 $40,993.2 $40,993.2 - $204,,966

2 ACE action plan to achieve Applied Research Excellence

2.1 - Procure general use research equipment and lab supplies

$15,993.2 $15,993.2 $15,993.2 $15993.2 $15,993.2 - $79,966

2.2 - Develop a core team to lead the advanced genome research lab

- - - - - - -

2.3 - Enhance sequencing capacity and field deployable tool creation

$15,000 $15,000 $15,000 $15,000 $15,000 $75,000

2.4 - Training of safety officer $3,000 3000 $3,000 3000 $3,000 - $15,000 2.5 - Training of security personnel

$3000- $3000- $3000- $3000- $3000- - $15,000-

2.6 - Support for international conference presentations and manuscript publication

$4,000 $4,000 $4,000 $4,000 $4,000 $20,000

Action Plan3

(Expected output) $0 $4,333 $0 $4,333 $4,333 $0 $13,000

3 ACE action for attracting Regional Faculty and Students

3.1 - Educational and outreach program - Provide informational outreach/ marketing to potential female students, and underserved communities and students exchange from around the region.

- $3,000 $3,000 $3,000 - $9,000

3.2 - Outreach program for ACEGID partners and regional faculty exchange

- $1,333 - $1,333 $1,333 - $4000

Totals $82,663.4 $86,996.4 $82,663.4 $86,996.4 $86,996.4 $83,040 $509,357

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3. TIMING OF PLANNED ACTIVITIES FOR ENTIRE PROJECT PERIOD (Gantt chart)

Table 3: Work plan for the project

Construction - ACEGID center

Procure core facility equipment

Plan/design - ACEGID center

Genomics lab remodel

External Advisory Group Meeting

Faculty Exchange Program Dev.

MiSeq Validation Test Run

Pilot Test qPCR Panel

Implementation Plan Meeting

ACEGID Government Internship

ACEGID Biotech Internship

Develop ACEGID Website

Develop Outreach Program

Recruit and hire security personnel

Procure and install sequencing equipment

Recruit and hire all key personnel

Procure general lab equipment/ supplies

Train Site managers at Harvard

Monetary Valuation

On-site workshops

Professional development course

Advanced training course

Education evaluation report

Ph.D. program - Train students

M.S. program - Train students

Purchase Equipment and reagents

Foundational training course

Procure teaching lab equipment

Ph.D. program - recruit faculty/students

M.S. program - recruit faculty/students

Apr Jun Aug Oct Dec Feb Apr Jun Aug Oct Dec Feb Apr Jun Aug Oct Dec Feb Apr Jun Aug Oct Dec Feb Apr Jun Aug

Year 1 Year 2 Year 3 Year 4

Go

als

Action Plan 1

Action Plan 2

Action Plan 3

Action Plan 4

Action Plan 5

World Bank and H3 Implementation

http://en.wikipedia.org/wiki/Gantt_chart

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4. IMPLEMENATION ARRANGEMENTS

4.1 Guiding rules and regulations

(Briefly describe the rules that governs the ACE and its partnerships, including safeguarding against fraud/corruption)

Equity and respect are the major rules that will govern ACEGID. As such, resources will be leveraged to

achieve equitable distribution among all African academic partner institutions: Redeemer’s University

will be the major ACE focal activities Center; RUN will serve as a hub to all of the ACE partners and will

primarily teach the core genomics courses at this site. RUN will purchase all equipment on behalf of all

sites and distribute accordingly. In addition, RUN will serve as the M& E Center; will organize most

faculty exchanges. The University of Ibadan will recruit six (6) Ph.D. students and will teach part of the

curriculum relating to microbiology and genomics. The University of Sierra Leone and Université

Cheikh Anta-Diop (Fig. 1). Will also be involved in teaching courses for ACEGID fellows, serve as part

of a faculty exchange program and outreach program; they will also involve in the language program.

ACEGID collaborating Institutions will develop materials and hold forums for educators to learn about

current research, engage in discussions with scientists, tour labs, and work through portable lessons that

they can bring back into their classrooms. All lesson materials will be distributed freely on the ACEGID

website in French and English tailored to West Africa students, so that science teachers can also deliver

these engaging, hands-on lessons in classrooms throughout West Africa and beyond.

As described in detail below (section 4.2) an External Advisory Group (EAG) will advise Prof. Christian

Happi on all aspects of project management, including assuring an equitable distribution of resources.

ACEGID will also leverage existing ties amongst its African University Partners with advanced research

laboratories for genomics and infectious diseases, including Irrua Specialist Teaching Hospital, Malaria

Research Laboratories, Kenema Government Hospital and Hospital Le Dantec. Prof. Happi is also the

Principal Investigators of the WAGER network, which is a research project supported by a grant from the

H3Africa consortium, the leading initiative to develop genetic research capacity in Africa (h3africa.org).

Through interaction with the H3Africa consortium, the benefits of ACEGID will be disseminated even

more broadly. Prof. Happi and some members of the ACEGID team are founding members of the Viral

Hemorrhagic Fever Consortium, an international group of academic and industrial researchers dedicated

to the development of diagnostics, therapeutics and vaccines (vhfc.org).

ACEGID is also committed to prevent isolated academic ivory-tower excellence and ensure social

relevance and enhance as wide a joint scientific constituency as possible. In order to achieve this,

ACEGID will pattern its Educational and Community Outreach Program based on a program at the Broad

Institute. The Educational and Community Outreach Program trains students, teachers, nurses, and other

community members in the foundations in genomic science and engagement with local communities.

ACEGID is committed to outreach through a variety of broad-based capacity-building efforts. During the

initial funding period these efforts will be focused in the countries of Nigeria, Sierra Leone and Senegal,

but will expand throughout the West Africa sub-region thereafter. Specific outreach initiatives include:

Summer Research Program in Genomics/Infectious Diseases for selected undergraduates. This will be

an eight-week residential program that offers research, training and mentorship experiences. It is

designed to increase the number of students seeking graduate degrees in STEM fields by providing

them independent research experience, training in scientific communications, and career development

activities that show how to develop a successful scientific career. Each of the four core ACEGID

universities will enrol 6 students in each summer of the program.

The Visiting Faculty Program offers participants from Nigerian, Sierra Leonean and Senegalese

colleges and universities opportunities to learn methods and apply state-of-the-art approaches to

research, and obtain high-level guidance and mentoring with the goal of sustaining that research at the

participants’ home institutions. Many of the research methods (e.g., computational approaches) are

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fully compatible with the existing infrastructure at their own institutions. While these opportunities

will be custom-tailored for each visiting faculty member we anticipate that the four core ACEGID

universities in West Africa will enrol 2-4 visiting faculty per year.

Outreach to non-ACEGID institutes will be a major focus of the ACEGID program. To this end,

the faculty exchange program described in the previous section will also be extended to colleges

and universities in remote areas or neighbouring counties. At least one faculty member per year

from a non-ACEGID institution will be invited to spend either one summer or one semester at an

ACEGID core university, and will engage in genomics or infectious diseases research. As with

the inter-institutional exchange program described in the prior section, this faculty member will

teach at least one course in their area of specialty while in residence.

4.2 Governance structures

(Briefly describe ACE governance structures both within the host university and among the partner institutions, at faculty/centre level and university/institution level)

The administrative and technical framework of ACEGID, which indicates both clear lines of authority

and responsibilities, is presented in Figure 1 below. ACEGID is organized to maintain stringent control

over all the activities required to successfully complete the projects and training components outlined in

the project. Prof. Christian T. Happi is the Centre Leader and, as such, is primarily responsible for the

management of the collaborating partners within and outside Redeemer’s University.

Governance and execution of the Centre’s activities will occur through Prof. Happi’s interactions with

various heads of Departments at Redeemer’s University, regional and international collaborators and the

External Advisory Group (EAG).

The three major strengths of ACEGID are: (1) freedom from political or ‘special interest’ influence. (2)

Access to clinical and laboratory resources and samples from febrile patients in the West African

countries of Sierra Leone, Senegal, and Nigeria; and (3) Access to world-class expertise in genotyping,

sequencing and genetic analysis technology. To assure independence from political or ‘special interest’

influence, the EAG will comprehensively monitor Centre activities. The main functions of this board is

to: (1) receive progress reports from the PI on all ACEGID activities, (2) receive and review financial

reports, (3) review all planned activities and suggest adjustments, as necessary, (4) monitor outputs and

outcomes of research and training projects, and (5) advise the Director/centre leader of ACEGID on the

final evaluation plan. Members of the EAG are listed in the organogram below, and include Prof. Happi

and the deputy leaders Dr. Grace. Gbotosho and Dr. Onikepe Folarin, and the leaders of the research

cores in Sierra Leone and Senegal. Prof. Pardis Sabeti, a world leader in the genomics of infectious

diseases, will chair the EAG. Other members of the EAG consist of world-renowned scientists and

academics in the field of genomics and infectious diseases. The EAG will compile baseline research data,

research profiles and performance indicators. They will meet approximately 6 months later to access

progress. A midcourse evaluation will be conducted in year 2. The external evaluators will perform the

final evaluation at the end of year 3. The results of all evaluations will be shared with the World Bank.

The EAG will also meet in case of emergency, when necessary.

To ensure the success of the programme, the center leader and deputy center leaders will

comprehensively monitor partners/collaborators activities. They will receive progress reports from the

project leaders from collaborating Institutions; review all planned activities and suggest adjustments, as

necessary; monitor outputs and outcomes of ACEGID research and training projects, and report to the

Expert Advisory Group, who in turn will assess the report, advise and make recommendations.

At Redeemer’s University, the Departments of Microbiology, Chemical Sciences (Biochemistry Unit),

Mathematical and Computer Sciences and the Department of English and Language studies are all

partnering for the success of the proposed ACEGID. While the Department of English will facilitate

English proficiency for students and researchers from francophone countries of Africa prior to their

enrollment in to the Masters or PhD programmes or any of the training, the mathematical sciences,

microbiology and chemical sciences will facilitate the training and research in the centre.

Specifically, the Department of mathematical and computer sciences will participate in the computational

biology and bioinformatics training component of the programme, while the Department of microbiology

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and chemical sciences will facilitate training and research in the areas of microbiology and genomics and

biochemistry respectively. Overall, ACEGID is designed to be an enabling environment for teaching and

research. To ensure effectiveness and efficiency, a critical component of ACEGID will be its evaluation

plan. We intend to use three methods to evaluate the effectiveness and efficiency of the program. These

are: process evaluation to assess the implementation of activities in the program, outcome evaluation to

determine whether or not the objectives of the program have been met at the end of each program

component, and impact evaluation to assess the Centre’s long-term goals.

ACEGID Core ManagementProf. C. Happi - Director

Dr. O. Folarin - Deputy DirectorKenneth Onye MPH - Project Manager

Fig1: Governing structure of ACEGID

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4.3 Incentive structures

(Briefly describe the incentive structures for involved staff at lead and partner institutions (faculty, administration, management) as well as towards involvement of external stakeholders, e.g. private sector). Please be aware that the ACE project budget does not support salary topping up, sitting allowances and a like).

4.3.1. Incentive structures for involved staff at lead and partner Institutions:

Although Redeemers’ University (RUN) was established only 8 years ago, it has already become

one of the leading tertiary Institutions in Nigeria, providing education to students with the latest state-of-

the-art technologies. The university has established partnerships with world leading Institutions like

Harvard University, MIT, the Broad Institute and Tulane University. The University has also established

collaborations with two major clinical testing centers (Irrua Specialist Teaching Hospital and Ikorodu

General Hospital) in Nigeria. With these, RUN is quickly becoming an international pole of scientific

excellence in Africa, especially in the area of genomics of infectious diseases. ACEGID centre leader

recently obtained a 1.8 million Dollars grants from the USA NIH for research in genomics of infectious

diseases with a strong support of RUN authorities. All the achievements obtained at RUN within a very

short while can only be, because of the strong support of the University administration and management

toward research excellence. RUN has been tremendously successful in attracting faculty with track records of obtaining research

grants and achievement in various areas of sciences. Among them are Professor Happi (the Centre Leader

of this application) and Professors Oyewale Tomori (immediate past Vice- Chancellor, former World

Health Organization executive for Sub-Saharan Africa and current President of the prestigious Nigerian

Academy of Science), and many more. RUN has a healthy mix of senior faculty who are well-recognized

nationally and internationally for their work, mid-career scientists whose reputations and

accomplishments are increasing, and new faculty embarking on independent careers. The added quality

and vigour of ACEGID has been a major recruiting tool for new faculty at RUN and other ACEGID

institutions. Furthermore, because ACEGID institutions encompass both Anglophone and Francophone

countries, and many ACEGID investigators including the PI, Dr. Happi, are bilingual. To ensure the

broadest exchange of ideas amongst ACEGID institutes, Redeemer’s University will initially provide a

building for language support for the training of Francophone Africans that will be equipped and

furnished by ACEGID. Additionally, funds will be allocated for translation of the ACEGID website into

both English and French and ACEGID teaching materials will be provided in both English and French.

Overall, RUN has established a non-hierarchical culture that encourages grass-roots initiatives by trainees,

providing them with the resources and backbone necessary to conduct cutting edge genomics/infectious

diseases research.

Other partner Institutions involved in ACEGID enjoy strong support from their managements.

The ACEGID Core Universities, Redeemer’s University (RUN), The University of Ibadan (UI), The

University of Sierra Leone (USL) and Universite Cheik Anta-Diop (UCAD) have a history of close co-

operation. Investigators in all institutions involved in the ACEGID partnership have a history of joint

research and publications. This is the usual incentive that they have all been enjoying over the past

decade. This unique experience was illustrated by the strong letters support that ACEGID received from

the heads of these various Institutions. Individually, these Institutions are unique in many ways:

The University of Ibadan (UI) is Nigeria’s premier university and one of Africa’s foremost

academic and iconic institutions, which offer undergraduate, postgraduate programmes in a wide range of

disciplines. With over 300 full professors in diverse disciplines, it is progressively transforming into a

research-driven, postgraduate institution prepared to continually meet the national challenge of training

successive generations of academic workers for both the Nigerian University System and the tertiary

institutions in the Sub-Saharan Africa. UI has been involved in several global competitions culminating in

the establishment of several multidisciplinary centres/institutes, sponsored by grant-awarding institutions.

The Malaria Research Laboratories (MRL) at the University of Ibadan is a multidisciplinary research

group at the College of Medicine, and consisting of scientists with track record of research in molecular

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biology and genomics and development of novel diagnostic techniques. The MRL also have a track

record in international funding and capacity building among African scientists.

The University of Sierra-Leone (USL) will be the primary source of Sierra Leonean

undergraduate and graduate students for training at other ACEGID institutions and international partners.

USL faculties also use KGH as a primary site for genomics of infectious disease research program.

Universite Cheikh Anta Diop (UCAD) predates Senegalese independence and is one of the largest

(>60,000 students) and most prestigious universities in West Africa. ACEGID will leverage on existing

strong ties between Prof. Happi and UCAD researchers. UCAD’s Department of Parasitology is a part of

the National Reference Center for Malaria Research and Diagnostics, and they retain research units in

molecular biology, immunology, and microbiology, each with teaching laboratories. In addition to the

primary laboratory and satellite facilities, the Department of Parasitology also maintains two field sites at

the district hospital of Guediawaye (in the suburban area of Dakar) and at the Keur Soce Research and

Training Center (in the Kaolack region of southeast Dakar). UCAD faculty will also be the primary

contacts with a major ACEGID research site at Le Dantec Hospital. UCAD will send and receive faculty

and students to participate in training, learning, and scientific enhancement activities of ACEGID.

4.3.2. Incentives toward involvement of external stakeholders

ACEGID has established a partnership with Illumina, a leading private company in genomics technology.

Via its established connection with the VHFC, ACEGID also has established links to several

biotechnology companies in the infectious disease area, including Corgenix, Autoimmune Technologies,

Vybion and Zalgen Labs. ACEGID will aggressively reach out to local biotechnology companies in

Nigeria, Sierra Leone and Senegal to establish research and training partnerships. ACEGID will also

partner with the Ministries of Health in Nigeria, Sierra Leone and Senegal to promote genomics of

infectious diseases research and training. To enhance and strengthen these partnerships each ACEGID

core institute will sponsor interns in industry and government offices. These individuals will spend one

summer or one semester of training at either an ACEGID affiliated company or at a Ministry of Health

sponsored site (for example: Irrua Specialist Teaching Hospital, the Malaria Research laboratories, or

Kenema Government Hospital).

4.4 Roles and Responsibilities DESCRIBE ACADEMIC ROLES THEY WILL PLAY

(Brief Terms of Reference (TOR) for each ACE team member and project financed support staff*) Justification for not using existing university administrative and support staff is required.

TOR for ACEGID Team Members:

The Center Leader/Director: Prof. Christian T. Happi is the Centre Leader and, as such, is primarily

responsible for the management of the collaborating partners within and outside Redeemer’s University.

Professor Happi is currently the Dean of postgraduate studies at the Redeemer’s university and an expert

in genomics of infectious diseases having spent many years both nationally and internationally. He will

be a valuable asset to many ACE enrolled students. As the centre leader, he will also have ultimate

responsibility and authority for: (1) delivering project objectives within agreed upon timeframes; (2)

managing Centre members to ensure project control; and (3) escalating issues to the EAG, if needed.

Deputy Center Leaders: The deputy leader prof. Grace. Gbotosho and Dr. Onikepe Folarin will assist the

center leader in coordinating the ACEGID programme. To ensure the success of the programme, the

center leader and deputy center leaders will comprehensively monitor partners/collaborators activities.

They will receive progress reports from the site leaders from collaborating Institutions; review all planned

activities and suggest adjustments, as necessary; monitor outputs and outcomes of ACEGID research and

training projects, and report to the Expert Advisory Group, who in turn will assess the report, advise and

make recommendations. Both deputy leaders are faculty members and experts in genomics field; they will

primarily be responsible for curriculum development and teaching of genomics courses to enrolled

students

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Institutions project Leaders: Each Institution in the ACEGID programme has a leader who coordinates

research and training activities in the given University or teaching Hospital. The site leaders will prepare

progress reports from their various Institutions; review all planned activities and suggest adjustments, as

necessary to deputy and centre leader; monitor outputs and outcomes of ACEGID research and training

projects at their various Institutions. The Institutions leaders will also be ACEGID advocates in their

various Institutions.

Head of Academic Departments: At Redeemer’s University, the Departments of Microbiology,

Chemical Sciences (Biochemistry Unit), Mathematical and Computer Sciences and the Department of

English and Language studies are all partnering for the success of ACEGID. While the Department of

English will facilitate English proficiency for students and researchers from francophone countries of

Africa prior to their enrollment in to the Masters or PhD programmes or any for of training, the

mathematical sciences, microbiology and chemical sciences will facilitate the training and research in the

centre. Specifically, the head of Department of mathematical and computer sciences will participate in the

computational biology and bioinformatics training component of the programme, while the heads of

Department of Microbiology and Chemical Sciences will facilitate training and research in the areas of

microbiology and genomics and biochemistry respectively.

Project Manager: Mr. Kenneth Onye is Nigerian from the Diaspora who has 18 years of experience as a

manager on CDC projects in Michigan, United States. Mr. Onye will be bringing on board his unique

experience and perspective as biomedical research project manager. Currently, Redeemer’s University

does not have a trained and experience project manager that can manage a large and complex project like

ACEGID. Mr. Kenneth Onye’s experience in the United Sates and his understanding of the Nigerian

culture and context will not only bridge communication between American and African investigators, but

will also and facilitate a smooth running of the research project. He will responsible to ensure the smooth

day-to-day running of the project and facilitate liaison and communication between all project partners.

The project manager will monitor progress reports from all sites and collaborating Institutions; review all

planned activities and suggest adjustments, as necessary to the center leaders; monitor outputs and

outcomes of ACEGID research and training projects, and report to center leadership, who in turn will

assess the report, advise and make recommendations. He will also prepare the annual meeting of the

External Advisory group and the yearly International conference that will be organized by ACEGID. In

addition to his duties, Mr. Kenneth Onye will double up as a safety officer. He will be responsible for

training of project staff safety issues. Mr. Onye may also teach introductory classes in public health and

epidemiology to undergraduates and MSc. Students. Kenneth has gone through extensive training in

level 4 emergency preparedness and laboratory safety procedures at the Harvard University and US

Federal Emergency Management Agency (FEMA).

Administrative assistant: He/She will be a project staff hired to assist ACEGID project manager and the

center leaders in the daily running of activities in the centre. Will help the PM in keeping records of

ACEGID fellows and activities.

Accountant: Mrs. Okunola is a Chartered accountant and a staff of the Bursary Department of

Redeemer’s University. She has been assigned to the project in order to manage the account of ACEGID.

Financial Officer: Mr. Adeyemi is a financial officer at the Bursary Department of Redeemer’s

University and has been redeployed to ACEGID office with the responsibility to the project leadership

(project manager and leaders) in the management of its finance.

Procurement Officer: Prof. Adekeye is the head bulk purchase Department at Redeemer’s University has

been assigned the responsibility to lead the assist the project with procurement. He will be responsible

for all transactions related to purchase of items and equipment in the project.

Internal Auditor: Mrs. Akinlawon, a Chartered auditor and a staff of Redeemer’s University has been

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assigned to be the internal auditor for the project. She will be responsible to audit all expenses and

facilities related to the project.

Bioinformatics Lead Scientists: A bioinformatics lead scientist will be drawn from the Nigerian Diaspora

and employed by the project. Redeemer’s University and other Nigeria Institutions do not have lead

bioinformatics scientists, because this new field of science is relatively new and non-existing in the

Nigerian tertiary education landscape. The lead Bioinformatics Scientist will be a computational biologist

that will be responsible for analysis computational and deep sequencing data from next generation

sequencer. He/She will be responsible for the storage and management of data within the project. In

addition, he/she will also be involved in the training of African scientists in the computational biology

and bioinformatics. The lead Bioinformatics Scientists together with the project manager will also be

responsible for the organization of the annual bioinformatics workshop that ACEGID will be organizing

for members from participating Institutions and other African countries.

Genomics Laboratory Technologist: A genomics technologist with extensive research experience and

training at the Harvard University will be hired by the project and will be responsible for the management

of the genomics research laboratory, as well as the genomics core service facility at ACEGID. The

candidate should have experience in the field of genomics and biomedical research in infectious diseases.

The laboratory technologist will also be involved in the teaching of undergraduate and graduate students

lab procedures, DNA & RNA extraction and use qPCR equipment. In addition to his/her duties, will be

training University technician and technologist in the field of genomics. Furthermore, the Genomics

laboratory technologist will also serve as an assistant safety officer to the programme manager.

Driver: The project driver (yet to be hired) will be responsible to drive maintain the project vehicle. This

will be a project staff on contract with ACEGID, in order not to increase the University overhead at the

end of the project.

Webmaster/IT specialist: Mr. Okunfolami Adedayo is a Redeemer’s University webmaster and IT

specialist that will be commit part of his time to the ACEGID project. He will be responsible for daily

maintenance and update of ACEGID website.

Collaborating Partners: The collaborating partners, especially from the USA will be devoted to train

African Scientists and transferring new technologies in African Institutions. These partners are from both

the academic and Industry.

4.5 Environment safeguards

(Insert the Environmental Management Plan and disclosed on your website, please list responsible staff)

A copy of the EMP is attached.

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5. PERFORMANCE MONITORING

(Please insert the Result Framework shared with AAU, and please indicate planned disbursement as a function of the expected results*)

ACEGID REVISED DLI & RESULT FRAME WOK ATTACHED SEPERATELY:

Disbursement

Linked

Indicator

Action to be Completed Amount (USD) of the

Financing Allocated

Per DLI

(expressed in Special

Drawing Rights

(SDR))

Amount (USD)

Allocated per DLR

for the

Disbursement

Calculation

(expressed in SDR)

DLI 1:

Institution

qualified,

regional

specialization

approved and

administrative

capacity and

proper

planning

DLR 1.1: Signing of MoUs

DLR 1.2: Establishment of ACEGID External

Advisory Group

DLR 1.3: Creation of ACEGID designated account

DLR 1.4: Approved financial management and

procurement procedures and capacity

DLR 1.5: Establishing ACEGID Office

$800,000

$800,000

DLI 2:

Excellence in

Education

and Research

capacity and

Development

Impact

DLR 2.1 – DLR 2.3: Number of New Students in

ACEGID Courses.

New Masters Students: 2015-2018

-75 National: 39 males & 36 females

-52 Regional: 28 males & 24 females

New PhD Students: 2015-2018


-10 Regional: 6 males & 4 females

New Short-term Students: 2015-2018


-260 Non-National: 130 males & 130 females

DLR 2.4: # of Outreach “periods” (faculty and

students): 2014-2018.

-National: 200 (109 faculty)

-Regional: 100 (38 faculty)

DLR 2.5. Accreditation

-National Accreditations

-International Accreditation

DLR 2.6. Number of papers published in

Internationally recognized and Peer-Review

Journal: 2015-2018.

$168,000

$232,000

$190,000

$220,000

$166,000

$234,000

$400,000

$400,000

$200,000

$600,000

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Disbursement

Linked

Indicator

Action to be Completed Amount (USD) of the

Financing Allocated

Per DLI

(expressed in Special

Drawing Rights

(SDR))

Amount (USD)

Allocated per DLR

for the

Disbursement

Calculation

(expressed in SDR)

-26 papers co-authored regionally

DLR 2.7. Externally generated Revenue: 2015-

2018.

National revenue forcast-$800,000

Regional revenue forecast - $200,000

DLR 2.8. Improved Teaching and Learning

environment as approved proposal:

- Complete renovations of current Redeemer’s

teaching laboratory.

- Procure and sign ACEGID genomics center

building contract with the building contractor.

-Applied research and education equipment

procurement

-Building completion; with students and

Researcher using completed ACEGID building

$800,000

$800,000

$400,000

-$400,000

-$400,000

-$400,000

-$400,000

DLI 3 Financial

Management

DLR 3.1. Functional audit committee overseeing

ACEGID: 2015-2018.

DLR 3.2. Functioning University audit

committee: 2015-1018.

DLR 3.2. Transparency on financial

management: 2015-2018.

DLR 3.3. Timely withdrawal application

supported by financial reporting for ACEGID:

2015-2018.

-$100,000

-$100,000

-$100,000

-$100,000

DLI 4 Procurement

DLR 4.1. Third Party procurement process

verification

DLR 4.2. Timeliness of procurement progress

-$200,000

-$200,000

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6. DETAILED BUDGET

Table 5: Budget, 2014 – 2018 with split between partners

Expenditure Category

Estimated Costs in (US$)

YR 1 2014

YR 2 2015

YR3 2016

YR 4 2017

YR5 2018

Total %of total

A: Budget by Activity Plan

Action Plan 1: ACE action plan to achieve Learning Excellence

$522,598 $708,536 $555,699 $636,699 $- $2,423,532 30% Action Plan 2: ACE action plan to achieve Applied Research Excellence $971,387 $543,252 $401,315 $401,314 $- $2,,317,268 29% Action Plan 3: ACE action for attracting Regional Faculty and Students $426,800 $192,800 $192,800 $192,800 $- $1,005,200 13% Action Plan 4: ACE action for Collaboration with International Partners $116,000 $116,000 $116,000 $116,000 $- $464,000 6% Action Plan 5: ACE action plan for ACEGID Teaching infrastructure $1,690,000 $0 $- $- $- $1,690,000 21%

Programme Management (subsumed under Action Plans 1-5)

Contingency $40,000 $20,000 $20,000 $20,000 $100,000 1%

TOTAL $3,766,785 $1,580,588 $1,285,814 $1,366,813 $- $8,000,000 100%

% 47% 20% 16% 17% $- 100%

B: Budget by partners

Redeemer’s University $3,232,428

$1,179,908 $851,599 $886,588 $- $6,150,523 77%

Irrua Specialist Teaching Hospital $82,663.4 $59,528 $66,235 $75,437 $- $283,863.4 3.5%

University of Sierra Leone $86,996.4 $59,528 $66,235 $75,437 $- $288,196.4 3.6%

Kenema Government Hospital $82,663.4 $59,528 $66,235 $75,437 $- $283,863.4 3.5%

Universite Cheik Anta-Diop $86,996.4 $59,528 $66,235 $75,437 $- $288,196.4 3.6%

University of Ibadan $86,996.4 $59,528 $66,235 $75,437 $- $288,196.4 3.6%

Broad Institute $83,040 $83,040 $83,040 $83,040 $- $332,160 4%

Contingency $25,000 $20,000 $20,000 $20,000 $100,000 1%

TOTAL $3,766,785 $1,580,588 $1,285,814 $1,366,813 $- $8,000,000 100%

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7. DETAILED ACTIVITY SHEETS (one for each activity)

Action Plan: ACE action plan to achieve Learning Excellence Timeframe: May 1, 2014 to September 1, 2014 Activity: 1.1 Foundational Genomics training course at Broad Institute/Harvard

:

RESULT Expand the scientific capability of students and faculty to pursue independent and collaborative studies addressing infectious disease challenges in Africa.

ACTIVITY 1.1 Foundational Genomics training course at Broad Institute/Harvard

OUTPUT Development of a foundational 10-week training program for members of the ACEGID Network (including site directors, trainees, students, and technical staff) to be held at the Broad Institute/Harvard in year 1, and for additional trainees and staff in years 2-4. The Foundational Training program will provide core training in technical procedures, study management, and fundamental scientific concepts, as well as a 2-week research module (including paper and oral presentations). It will serve as a training of trainers (ToT) program, in which at least one trainee from each institution will subsequently teach a >1 week on-site course at their home institution.

OUTPUT INDICATOR Number of students receiving and completing the training.

SOURCE OF VERIFICATION Project Manager: provides pictures, videos, certificates, names of participants

IMPLEMENTATION MILESTONES

- Housing and laboratory space for visiting trainees reserved by June 1, 2014

- Coursework plan organized by June 1, 2014

- In the first year, 14-20 ACEGID members from the 4 sites in 3 countries will attend. Course complete by August 31, 2014

- In years 2-4, we will bring 5-7 new trainees and staff taken from all sites to continually enhance work at the site.

- The curriculum will include: technical procedures (diagnostic research tools, troubleshooting protocols), study management (data management, human subjects procedures, financial training), and fundamental scientific concepts (core concepts underlying microbiology, understanding the science behind technical protocols).

- Training videos and course materials to be made public on ACEGID website

PROCUREMENT Not Applicable

RESPONSIBILITY FOR IMPLEMENTATION

ACEGID Leadership (specifically Center Director and Project manager)

DURATION: 5 months Commencement: 01 May 2014 Completion: 30 September 2014

PRIMARY CONSTITUENTS: ACEGID Faculties and staff PARTICIPANTS: Center Director, Project Manager, Vice

Chancellor, Students, Harvard University and Broad

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members and students.

Institute Instructors.

ASSUMPTIONS MoU signed between partner institutions, travel visas approved.

FINANCIAL IMPLICATIONS Budget from ACEGID SUPPORT FROM THE UNIVERSITY

Budget Line Analysis

1st Qtr 2nd Qtr

3rd Qtr

4th Qtr 5th Qtr 6th Qtr Total

AG-T-1 Visa and SEVIS fees -Foundational training workshop (3mos, 18 people)

$6,282

$6,282

AG-T-2 Airfare - Foundational training workshop (3mos, 18 people)

$28,800

$28,800

AG-T-3 Housing - Foundational training workshop (3mos, 18 people)

$54,000

$54,000

AG-T-4 Health insurance - Foundational training workshop (3mos, 18 people)

$4,050

$4,050

AG-T-5 Mobile phones - Foundational training workshop (3mos, 18 people)

$2,862

$2,862

AG-T-6 Local transportation - Foundational training workshop (3mos, 18 people)

$4,500

$4,500

AG-T-7 Meals & incidentals - Foundational training workshop (3mos, 18 people)

AG-T-15

Lab training supplies - Foundational and Advanced training workshops

$9,376

$9,376

AG-P-5 Training Consultants $100,000

$100,00

TOTALS $209,870

$209,870

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Action Plan: ACE action plan to achieve Learning Excellence Timeframe: September 1, 2014 to April 30, 2015 Activity: 1.2 On-site workshops/short-term trainings at ACEGID partner sites (RUN,

UCAD, USL, UI)

RESULT Enable ACEGID members to provide training programs within Africa to their colleagues and collaborators.

ACTIVITY 1.2 On-site workshops/short-term trainings at ACEGID partner sites (RUN, ISTH,

KGH, UCAD, USL, UI)

OUTPUT - We will conduct annual 2-week trainings over years 1-4 in each of the 4 ACEGID sites for the larger scientific communities, including trainees and scientists from other institutions in the various countries of the network.

- The goal of this workshop is to bring genomics to the doorsteps of faculty and student members of ACEGID institutions in Africa.

- The workshop will cover laboratory procedures, RNA and DNA Extraction, Host genetics and association, sequencing and sample preparation, shipping and lab safety.

- The on-site workshop program will also provide core training in technical procedures, study management, fundamental scientific concepts, and paper and oral presentations, and community engagement.

OUTPUT INDICATOR: Number of students enrolling, Number of students receiving and completing the training.

SOURCE OF VERIFICATION ACEGID Project Manager


- Workshop topics and teaching materials will be developed during the Foundational training during summer 2014, which will follow a Training of Teachers (ToT) model (see 1.1).

- Foundational trainees will be equipped to lead training programs at their respective home institutions. Each site and each group will decide which module is of greatest interest to the site and community.

- The first on-site workshop will be conducted by about October 2014 and hosted at Redeemer’s University.

- The second on-site workshop will be planned for University of Ibadan in about December 2014.

- Subsequent on-site workshops will be held at USL, and UCAD in early 2015.

- We aim to train 50-100 students per on-site workshop (x4) for a total of 200-400 short-course trainees for year 1.

- Training videos and course materials to be made public on ACEGID website (March 2015)

PROCUREMENT Equipment and lab supplies


ACEGID Leadership and faculty members in ACEGID partners Institutions.

DURATION: 8 months Commencement: 01 September 2014

Completion: 31 April 2015

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PRIMARY CONSTITUENTS: Students, faculty,

Nigeria citizens, and regional students and citizens from UCAD, USL

PARTICIPANTS: All ACEGID Team members, particularly site

coordinators, and Project Manager.

ASSUMPTIONS MoU signed between partner institutions, travel visas approved, successful completion of foundational course by ACEGID trainees

FINANCIAL IMPLICATIONS Budget from ACEGID


1st Qtr 2nd Qtr 3rd Qtr 4th Qtr 5th Qtr 6th Qtr Total

AG-T-17 Airfare for foreign facilitators - Site workshops (2wks, 4 people, x 4 sites)

$8,000.00 $8,000.00 $16,000

AG-T-18 Housing - Site workshops (2wks, 4 foreign facilitators, x 4 sites)

$8,960.00 $8,960.00 $17,920

AG-T-19 Meals & incidentals - Site workshops (2wks, 4 people, x 4 sites)

$3,360.00 $3,360.00 $6,720

AG-T-20 Local transportation - Site workshops (2wks, 4 people, x 4 sites)

$2,400.00 $2,400.00 $4,800

AG-T-31 Training Workshops/Short Courses

$6,812.50

$6,812.50

0

0

$13,625

TOTALS $29,532.50

$29,532.50

$59,065

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Action Plan: ACE action plan to achieve Learning Excellence Timeframe: May 1, 2014 to April 30, 2016 Activity: 1.3 Develop new M.Sc. and PhD degree programs in Genomics of Infectious Disease at

Redeemer’s University

:

RESULT Long-term educational programs will build a critical mass of life scientists in West Africa.

ACTIVITY 1.3 Develop new curriculum for a M.Sc degree program in Genomics of Infectious

Disease at Redeemer’s University

OUTPUT The M.Sc. program at Redeemer’s University will provide core molecular biology and genomics training to 75 national and 52 regional students year 2 - 4. Coursework will include: Genetics, Bioinformatics, Basic Principles of Microbiology, Clinical Microbiology, Epidemiology, Molecular Diagnostics Laboratory, Bioethics, and Critical Reasoning.

OUTPUT INDICATOR: completion of curriculum and submission to senate Number of students enrolling in the program and completing the degree requirements.

SOURCE OF VERIFICATION: -Decision extracts of RUN Senate -Project manager


- Curriculum drafted by September 1, 2014, and submitted by November 2014

- In the first year, we will begin to recruit faculty and students to the program through information sessions, conference presentations, center website (November 2014)

- In years 2-4 (2015-2018), we will seek to enroll 127 students nationally and regionally.

- NUC accreditation (June 2015)

- CAPES Accreditation June 2016

- Training videos and course materials to be made public on ACEGID website

- Time on the website upload on the ACEGID website; integrated as master degree program. This will be ongoing

PROCUREMENT Advertorials, printing materials and supplies, Funds to facilitate accreditation process


ACEGID leadership, Redeemer’s University curriculum committee, National University commission (NUC) accreditation team, International accreditation team (Brazilian CAPES)

DURATION: 24 months Commencement: 01 May 2014 Completion: 31 April 2016

PRIMARY CONSTITUENTS: RUN faculty members,

ACEGID leadership, students PARTICIPANTS: ACEGID leadership, students, RUN

curriculum committee, faculty members, NUC, CAPES.

ASSUMPTIONS Curriculum approval by RUN curriculum committee

FINANCIAL IMPLICATIONS ACEGID Budget


1st Qtr 2nd Qtr

3rd Qtr 4th Qtr

5th Qtr 6th Qtr Total

AG-T-34 Operational Cost-LIST AS $33,542 $33,542

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ADVERT

Action Plan: ACE action plan to achieve Learning Excellence Timeframe: May 1, 2014 to April 30, 2017 Activity: 1.4 Develop new Ph.D. degree program in Genomics of Infectious Disease at

Redeemer’s University

:

RESULT Graduates will develop the skills to lead independent research laboratories.

ACTIVITY 1.4 Develop a new PhD curriculum for genomics of infectious diseases at Redeemer’s University

OUTPUT The Ph.D. program will provide core molecular biology and genomics research training to 16 national and 10 regional students (year 2- 4). A key portion of the program will include student participation in the foundational and advanced training courses in each year of matriculation, 8-12 weeks annually, at the Broad Institute. The degree program will require the Master’s program coursework plus an independent research dissertation.

OUTPUT INDICATOR: curriculum approved by RUN Senate, Number of students enrolling in the program and completing the degree requirements.

SOURCE OF VERIFICATION -Decision extract of RUN Senate -Project manager


- Curriculum drafted by September 1, 2014, approved by November 2014

- In the first year, we will recruit faculty and students to the program through information sessions, conference presentations, center website

- NUC accreditation (June 2015)

- In years 2-4, we will begin to enroll 26 national and regional students.

- CAPES Accreditation June 2016

- The curriculum will include the M.S. program coursework, plus an independent research project

- Training videos and course materials to be made publically available on ACEGID website (March 2016)

PROCUREMENT


ACEGID leadership

DURATION: 12 months Commencement: 01 May 2014 Completion: 31 April 2015

PRIMARY CONSTITUENTS: RUN faculty members,

ACEGID leadership, students PARTICIPANTS: ACEGID leadership, students, RUN curriculum

committee, faculty members, NUC, CAPES.

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ASSUMPTIONS Curriculum approval by RUN curriculum committee

FINANCIAL IMPLICATIONS Budget for advertising combined with action plan 1.3



$0

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Action Plan: ACE action plan to achieve Learning Excellence Timeframe: May 1, 2014 to April 30, 2015 Activity: 1.5 Procure teaching and computer lab equipment

RESULT In order to develop a Centre of teaching excellence at Redeemer’s University and the

partner sites, we will procure all necessary laboratory equipment to each of our collaborating sites, along with foundational research equipment for microbial genetics.

ACTIVITY 1.5 Procure teaching and computer lab equipment

OUTPUT We will purchase all major equipment needs in order to outfit teaching labs during the first quarter of our award period. We will purchase other teaching laboratory supplies and consumables on a recurring basis beginning in Q1.

OUTPUT INDICATOR Fully equipped genomics teaching laboratories with necessary equipment for sustained infectious disease related research and lab classwork. Outfit labs before return from Foundational Training in Summer 2014.

SOURCE OF VERIFICATION -Sales receipts. -Project manager


- Outfitting of all research teaching labs with supplies, and consumables (start November 2014)

- Installation of all equipment in research teaching labs (start December 2014)

PROCUREMENT - Goods purchasing through Redeemers University and all partner sites - Recurring orders through purchasing with established vendors


ACEGID Project manager, ACEGID leadership, RUN Procurement Office

DURATION: Recurring orders Commencement: June 2014 Completion: April 2018

PRIMARY CONSTITUENTS: ACEGID leadership, RUN procurement Office, Partner institutions, students,

and technical staff

PARTICIPANTS: ACEGID leadership, partner institutions,

students, RUN procurement office

ASSUMPTIONS - Successful shipping of equipment and installation at Redeemers and Partner Sites - Labs outfitted after the terminus of Foundational Training in Summer 2014


Budget Line Analysis 1st Qtr 2

nd Qtr 3

rd Qtr 4

th Qtr 5

th Qtr 6

th Qtr Total

AG-E-3

Minus 80 Freezer $8000

$8000

AG-E-2

Eco machine – teaching $15000

$15000

AG-E-5

Biorad PAGE gel apparatus $250

$8,000

AG-E-4

Qubit fluorimeter $1845

$1845

AG-E- Magnet – teaching $500 $500

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6

AG-E-7

Centrifuge $786

$786

AG-E-8

Vortex – teaching $778

$778

AG-E-9

Cold centrifuge $2450

$2450

AG-E-10

Computer $10,000

$10000

$20,000

AG-E-13 Speed vacuum $778

$778

AG-E-15

AlphaImager Gel documentation system $2,450 $2,450

AG-S-1

TBE criterion gel $700 $700 $1400

AG-S-2

Kapa qPCR kit $6,300 $6,300

AG-S-3

Qubit assay kit $2,968 $2,968

AG-S-6

TE buffer $236.25

$236.25

$475.5

AG-S-7

qPCR master mix $23,625

$23,625

$47,250

AG-S-8

PCR primers $3500 $3500 $7000.

AG-S-9-11

Pipette Tips P10, P200, P1000

13223

13223

$26,446

AG-S-12-14

Eppendorf tubes, racks, markers

$4,768.85 $4,768.85

AG-S-18

plastic consumables $3500 $3500.00

AG-S-19

Liquid Nitrogen $1500 $1500 $1500 $1500 $6,000.00

AG-S-20

Shipping from U.S. $781 $781 $781 $781 $3124

AG-S-21

ELISA Reagents $7,500 $7,500

AG-S-22

Operating Cost $6,103.62

$6,103.62

TOTALS $110,043

$9,781

$43,565 $12281

$175,670

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Action Plan: ACE action plan to achieve Learning Excellence Timeframe: September 1, 2014 to April 31, 2015 Activity: 1.6 Evaluation of education programs

RESULT Create a scalable model that can become a partner program for other ACE projects.

ACTIVITY 1.6 Evaluation of education programs

OUTPUT The training programs themselves will be rigorously evaluated. The long-term success will be evaluated by the same metrics of the ACEGID program more generally. To ensure effectiveness and efficiency, a critical component of ACEGID will be its evaluation plan. We intend to use three methods to evaluate the effectiveness and efficiency of the program. These are: process evaluation to assess the implementation of activities in the program, outcome evaluation to determine whether or not the objectives of the program have been met at the end of each program component, and impact evaluation to assess the Centre’s long-term goals.

OUTPUT INDICATOR Number of evaluations performs and students/instructors taking part in surveys.

SOURCE OF VERIFICATION: -Project manager


- We will provide anonymous surveys distributed to all trainees and instructors after each module and onsite training workshop and develop metrics to evaluate the overall success of the training programs.

- Outcome evaluation will be conducted following completing of the foundation training course in late September 2014

- Process evaluation will be conducted at the end of year 1 to assess the implementation of program activities (November 2015)



ACEGID leadership, faculty members, ACEGID project manager

DURATION: Recurring until a year after the end of program (December 2018).

Commencement: 01 September 2014

Completion: December April 2018

PRIMARY CONSTITUENTS: Students, faculty, ACEGID project manager, partner institutions

PARTICIPANTS: ACEGID leadership, ACEGID partner

institutions, students, Faculty members, project manager.

ASSUMPTIONS Completion of foundational training course and on-site training modules.

FINANCIAL IMPLICATIONS None



None

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Action Plan: ACE action plan to achieve Learning Excellence Timeframe: May 1, 2014 to April 30, 2015 Activity: 1.7 Professional development course - sustainable financing

RESULT Develop popular professional development courses that will be a source of core financing as well as enabling future success in obtaining grant funding

ACTIVITY 1.7 Professional development course - sustainable financing

OUTPUT Develop a sustainable and ICT transferrable curriculum for short courses/workshop. We intend to conduct workshops on specific genomics topics at both national and regional levels, we plan to bring industry and academic experts to these workshops, and our partners at Harvard and Broad Institute will also participate as genomics experts at these workshops.

Some of our workshops will also involve grant writing, manuscript writing, good laboratory practices, collaborative research including collaborations with industry, ethical conduct in research, data acquisition and management and fiscal management training, mentor/mentee responsibilities and relationships, peer review, research misconduct and policies for handling misconduct, responsible authorship and publications

OUTPUT INDICATOR Number of students, faculty, and industry leaders attending these workshops. Number of grants submitted by ACEGID.

SOURCE OF VERIFICATION Course attendance logs and publically available grant records.


- By October 2014 we would outline professional development course program - By January 2015, one individual from each of the ACEGID sites will travel to

one of the international training sites (Broad, Harvard or Tulane) to participate in multi-week course in grant and fiscal management training.

- Subsequent sustainable financing courses to be held at RUN and other ACEGID sites.

- Training videos and course materials to be made publically available on ACEGID website following by March 2015

- After the end of the grant support, using the experience gained and with the support of the ACEGID, regular research courses will be conducted targeting national and regional researchers for a fee.

- EAG meetings (first meeting in May 2014, Second meeting by November 2014)

PROCUREMENT Not applicable


ACEGID leadership, Redeemer’s University, Cheik-Anta Diop University, University of Sierra Leone, University of Ibadan, ACEGID faculty members, students, industry partners, Harvard University and Broad Institutes members.

DURATION: 12 months Commencement: October 2014 Completion: April, 2015

PRIMARY CONSTITUENTS: All ACEGID partners

institutions, students, site coordinators, Industry partners

PARTICIPANTS: ACEGID leadership, All ACEGID

partner sites and faculty, students, sites coordinators

ASSUMPTIONS Successful engagement of course instructors from ACEGID partners Institutions and industry


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1st Qtr 2

nd Qtr 3

rd Qtr 4

th Qtr 5

th Qtr 6

th Qtr Total

Cost of operational training development

$44,452 $44,452

AG-T-32

External advisory group meeting

$

$

TOTALS

$44,452

$44,452

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Action Plan: ACE Action Plan for Research Excellence Timeframe: May 1, 2014 – April 30, 2015 Activity: 2.1. Procure students training and research equipment and lab supplies

RESULT We will bring all necessary laboratory equipment to each of our collaborating sites. This will enable field teams to carry out on-site students training on diagnostic, their research work, and enable larger community efforts.

ACTIVITY Procure students training and research equipment for each of our partner sites

OUTPUT We will purchase all major students training equipment needs in order to outfit research labs during the first quarter of our award period. We will purchase other laboratory supplies and consumables on a recurring basis beginning in Q1 for students training and their research.

OUTPUT INDICATOR: GENERAL LAB EQUIP PROCURNMENT Procure general laboratory and specific genomics equipment with necessary supplies for sustained students training and research. Outfit labs before end of 2014.

SOURCE OF VERIFICATION -Project manager -ACEGID African partners -Site labs running experiments.


- DATES AND TARGETS - Procurement of equipment (October 2014) - Installation of all equipment in research labs and partner sites confirming receipts

(November 2014) - Outfitting of all research labs with supplies, and consumables (December 2014)

PROCUREMENT - Goods purchasing through Redeemers University procurement office for shipment to partner sites

- Recurring orders through purchasing with established vendors

RESPONSIBILITY FOR IMPLEMENTATION RUN procurement office, University of Ibadan, Cheik-Anta Diop University, Dakar, Senegal.

University of Sierra-Leone, ISTH, Kenema general Hospital.

DURATION: Recurring orders

Commencement: June 2014

Completion: April 2018

PRIMARY CONSTITUENTS: RUN procurement office, ACEGID site coordinators, students, ACEGID project manager.

PARTICIPANTS: All ACEGID PARTNER, STUDENTS, FACULTY

ASSUMPTIONS - Successful shipping of equipment and installation at Redeemers and Partner Sites - Labs outfitted before the terminus of Foundational Training in Summer 2014

FINANCIAL IMPLICATIONS Budget from ACEGID.



1 AG-E-4, 6, 8, 10, 12, 14 General Lab Equipment

$210,861 0 0 0 0 0 $210,861

2 AG-S-1-3, 6-14, 28-22 General Lab Supplies (Recurring)

$32234 $32234 $32234 $96,702

TOTALS $243095 $32234 $32234

$307,563.00

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Action Plan: ACE Action Plan for Research Excellence Timeframe: May 1, 2014 – April 31, 2015 Activity: 2.2 Develop a core team to lead the applied genomics research lab.

RESULT We will recruit a top-level bioinformatician to direct bioinformatics practical training of students and faculty members at the genomics laboratory at Redeemer’s University

ACTIVITY Develop a core team to lead the applied genomics research lab.

OUTPUT - Hire qualified Individuals (bioinformatician and technicians) that will train students and faculty members on applied genomics technologies (including next-generation sequencing) and bioinformatics. - Qualified technicians will b able to ensure maintenance of Illumina MiSeq Next-generation sequencers and other laboratory equipment used for teaching and research.

OUTPUT INDICATOR Retaining these trained personnel throughout the funding period.

SOURCE OF VERIFICATION Employee records, Redeemers Univ.


- Hire qualified bioinformatician (December 2014) - Hire qualified Project Manager (April 2014) - -Hire qualified laboratory scientists/technicians with skills in infectious diseases

genomics (November 2014) - Training of technicians on maintenance and use of Illumina machines (training planned

in Nigeria as part of Equipment purchase agreement with Illumina. No associated cost.) [December 2014]

PROCUREMENT Works: Open hiring of the highly skilled persons by advertising


ACEGID Leadership.

DURATION: Hiring: 1-2 months, Illumina Training: 1-2 weeks

Commencement: April 2014

Completion: Hiring Completion: November 2014

PRIMARY CONSTITUENTS: All students, faculties and regional partners

PARTICIPANTS: Students, faculties and ACEGID leadership

ASSUMPTIONS Qualified individuals in Nigerian job market.

FINANCIAL IMPLICATIONS ACEGID Budget (see below)



2 AG-P-2 Salary – Bioinformatic Lead

$10,600 $10,600 $10,600 $10,600 $42,400

3 AG-P-3 Salary – Project Manager

$18,550 $18,550 $18,550 $18,550 $74,200

5 AG-P-6 Salary – Project Laboratory Staff

$9750 $9,750 $9,750 $9,750 $39000

8 AG-P-9 Operating Cost $6,626 $6,626 $6,626 $6,626 $26,504

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TOTALS

$182,104

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Action Plan: ACE Action Plan to Achieve Research Excellence Timeframe: May 1, 2014 – April 31, 2015 Activity: 2.3 Enhance sequencing capacity and field deployable tool creation.

RESULT In order to maintain excellence in a fast-moving field, we will partner with the Broad Institute, one of the world’s largest genome centers, and Illumina, the developer of the most advanced and widely used sequencing technology, to enhance continually our sequencing capacity and field-deployable tools. With institutional support from both organizations, we are poised to ensure that we are up to date with the best sequencing technology, and continually update and enhance our field-deployable tool to include all common pathogens. We will work with Illumina to purchase sequencers and learn proper maintenance and upkeep techniques. All other training is detailed in ACE Action Plan 1

ACTIVITY Enhance sequencing capacity and field deployable tool creation.

OUTPUT Ability to perform MiSeq sequencing runs by October 2015.

OUTPUT INDICATOR Purchase of 1 MiSeq and 7 Eco and completed Illumina training by August 2014. First successful sequencing run by October 2015

SOURCE OF VERIFICATION: -Project manager -ACEGID site coordinators -procurement officer -Purchase receipts -Illumina training documentation - sequencing data


- Purchase and install MiSeq at Redeemers University by August 2014 - Purchase and install Eco at Redeemers University by December 2014 - Purchase and install Eco at all African partner sites by January 2015 - Complete Illumina training by sequencing personnel at Redeemers University by

January 2015 - Complete Illumina training at all African partner sites by March 2015

PROCUREMENT Purchasing illumina MiSeq for RUN and Ecos (7) and reagents at RUN and all other partner institutions. Illumina are being purchased from Illumina technologies Inc, because the company is the developer of the most advanced and widely used sequencing technology equipment.


ACEGID leadership, Project Managers, procurement office at Redeemers University, Site coordinator, Genomics Platform Illumina technicians

DURATION: 12 Months

Commencement: May 1, 2014

Completion: May 1, 2015

PRIMARY CONSTITUENTS: ACEGID core training laboratory, faculty, students and laboratory scientists/technicians at ACEGID partners Institutions.

PARTICIPANTS: ACEGID faculty members, project manager, Bioinformatician, ACEGID laboratory scientists/technicians, llumina reps and technician for installation and training

ASSUMPTIONS - Successful purccahse, installation and training on Illumina MiSeq at RUN and shipment of Eco to all sites

- Timely hiring of bioinformatician and sequencing laboratory technician Redeemers University

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FINANCIAL IMPLICATIONS ACEGID BUDGET



1 AG-E-1 Illumina MiSeq (1) $100,000 0 0 0 0 0 $100,000

2 AG-E-2 Illumina Eco (7) $105,000 0 0 0 0 0 $105,000

3 AG-S-4-5 Eco Supplies $2205 $2205 $2205 $2205 $8820

4 AG-S-15-17 MiSeq Supplies and Reagents

$15,725 $15,725 $15,725 $15,725 $62,900

TOTALS

$276,720

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Action Plan: ACE Action Plan to Achieve Research Excellence Timeframe: May 1, 2014 – April 31, 2015 Activity: 2.4 Enhance Safety Measures and Training

RESULT We will enhance both Occupational Safety and Security Safety. We will partner with the experts with BL4 experience to optimize lab designs, standard operating procedures and provide training for optimal safety conditions for research. We will hire security personnel for enhanced security of labs within Redeemers University.

ACTIVITY Enhance safety measures (Occupational and Security) and training.

OUTPUT Lassa fever and other fever-causing microbes common in West Africa are of great risk to physicians and scientists working with them. Our partners at the NIH Integrated Research Facility, USAMRIID, and NBACC (the world’s top Biosafety Level 4 labs) will help us create the best lab designs, standard operating procedures and provide training for optimal safety conditions for research. We will conduct training on Good Laboratory Practice (GLP) at on-site training workshops. Additionally, we will hire specific personnel for the safety and security of those working within our labs at Redeemers University. This security will be responsible for overseeing access to the labs and regular check-ups for environmental and security hazards.

OUTPUT INDICATOR-Completed training of safety officer, security personnel hired. Laboratory redesign with annual spot checks of all ACEGID laboratories to monitor the medical and related laboratory waste disposal procedures, ensure site compliance with GLP procedures.

SOURCE OF VERIFICATION -Project manager -Training Curriculum for On-Site Workshops


- Conduct Good Laboratory Practice (GLP) course at On-Site Workshops (costs included in On-Site Workshops costs)

- Training a University Security Personnel - Engage security services by Summer 2014, ADDITIONAL - Training of the project manager or laboratory technician to also double as safety officer

by Summer 2014 - Conduct annual spot-check at all ACEGID sites to ensure GLP

PROCUREMENT Hire consultant for advanced safety training courses, Recurring expenses for safety and security training of personnel.


ACEGID leadership, project manager

DURATION: 4 years

Commencement: May 2014


PRIMARY CONSTITUENTS: students, project manager, laboratory technician, faculty, security and safety officer, all ACEGID Site Directors

PARTICIPANTS: ACEGID leadership, students, faculty, project manager, laboratory technician, Security Personnel.

ASSUMPTIONS - Availability of qualified security personnel to start training on time - Successful partnership consultations for GLP course

FINANCIAL IMPLICATIONS Enhance the security of MiSeq machine, which is a major investment and likely the first of its kind in West Africa; Enhance the security and safety of ACEGID employees

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1 AG-P-8 Training of Safety Officer and Security Personnel

$62,500 $56,500 $119,000

TOTALS $62500 $56,500

$119,000

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Action Plan: ACE Action Plan to Achieve Research Excellence Timeframe: May 1, 2014 – April 31, 2015 Activity: 2.5 Field-Site Monitoring and Support

RESULT We will purchase a project vehicle and the project manager will visit all collaborative sites at least twice in a year, perform trainings, replenish supplies, and monitor diagnostic and research work.

ACTIVITY Field-Site Monitoring and Support

OUTPUT In order to maintain regular connections at all sites and maintain projects, we will need to purchase a project vehicle to transverse Nigeria to different collaborative sites. The project manager will regularly visit ISTH and other partner sites as we develop new collaborations to carry out trainings, replenish liquid nitrogen and supplies, monitor safety and human subjects compliance, and serve as a resource to site teams. . The vehicle will also aid in community engagement activities.

OUTPUT INDICATOR Purchasing project vehicle by November 2014: Number of monitoring visits conducted

SOURCE OF VERIFICATION: RUN Procurement office -Project manager -Sites coordinators


- Purchase project vehicle, place vehicle at Redeemers University by early November 2014

- First monitoring date: end of November 2014 - Monthly site visit for monitoring and evaluation -

PROCUREMENT Vehicle and maintenance, supplies and consumables through Redeemers University.


Redeemer’s University procurement office

DURATION: 1 years

Commencement: November 2014 Completion: April 2015

PRIMARY CONSTITUENTS: RUN procurement office, project manager, sites coordinator

PARTICIPANTS: ACEGID leadership, Procurement unit at Redeemer’s University project manager

ASSUMPTIONS - Successful purchase of the project vehicle - Availability and maintenance of quality vehicle in Nigeria

FINANCIAL IMPLICATIONS ACEGID budget



1 AG-E-11 Monitoring Vehicle $50,000 $50,000

2 AG-E-11 Monitoring Vehicle Maintenance and Fuel

$1,500 $1,500 $1,500 $1,500 $6,000

TOTALS $51,500 $1,500 $1,500 $1500 $56,000

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Action Plan: ACE Action Plan to Achieve Research Excellence Timeframe: May 1, 2014 – April 31, 2015 Activity: 2.6 Support for International Conference Presentations and Manuscript

Publication

RESULT To provide support for students and faculty members to attend international conferences to present their research work. We will also provide support for ACEGID students and faculty to publish their manuscripts in international peer-reviewed journals.

ACTIVITY Support for International Conference Presentations and Manuscript Publication

OUTPUT We will provide support for manuscript charges and conference attendance to give PhDs, post-docs, and faculty opportunities to present their work to the world’s larger scientific community. In Year 1, we only anticipate one conference. In years 2-4, however, this number and the number of manuscripts will increase dramatically as PhD students begin the most critical years of their research projects.

OUTPUT INDICATOR -Number of students attending this conference -Number of presentations outside of the ACEGID conferences. -Number of publications

SOURCE OF VERIFICATION Publications and conference records. Project manager approval for travel


Year 1: Hold a conference at Redeemers University for Site Directors and to showcase their research projects and share ideas. Year 2: Support ACEGID students and faculty members to attend international conferences to present their research work Year 2-4: Support students and faculty members to prepare manuscripts for publication in Internationally peered-reviewed journals.



ACEGID leadership, project management office, ACEGID faculty members.

DURATION: 4 years Commencement: Budgeted for 3rd Quarter

Completion: April 30, 2018

PRIMARY CONSTITUENTS: ACEGID Students, faculty members

PARTICIPANTS: ACEGID leadership, students, faculty members, project management office.

ASSUMPTIONS - Successful beginning of the progamme




1 AG-T-31 Conference Attendance

$30,000 $30,000

TOTALS $30,000 $30,000

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Action Plan: ACE Action Plan for Attracting Regional Faculty and Students Timeframe: May 1, 2014 – April 31, 2015 Activity: 3.1 Educational and Community Outreach Program for potential female students

and underserved communities

RESULT Develop an educational and community Outreach Program for potential female students and underserved communities.

ACTIVITY Reach out and educate the community, especially potential female students and underserved communities

OUTPUT Establishment of an Educational Outreach Program that will be mainly target underprivileged/underserved community including: female students (including undergraduates and high school students); faculty (high school teachers and doctoral-level professors); students and faculty members from post-conflict countries in Africa.

OUTPUT INDICATOR: number of students (especially female), high school science teachers, visiting faculty participating in the educational outreach program; Number of students from underprivileged/underserved communities (especially post-conflict countries).

SOURCE OF VERIFICATION -Documented attendance by project manager, -Sign-in sheets, -Enrolment/registration logs


-Establish and maintain an ACEGID website (May 2014), -Develop promotional/educational materials that will be posted on the website (August 2014). -Develop a high school science teacher seminar and establish relationships with area high schools (September 2014) -Organize a High School Science teacher Outreach Program, especially via field trips to tour state-of-the-art ACEGID laboratories (December 2014) -Host community and education outreach programmes on various World Days of many of the infectious Diseases [E.g.: World Malaria Day, every April 25 2014, World AIDS day HIV day, every December 1, 2014 etc.] [April 2014] -Develop an online teaching series connected with a live Teacher Seminar for more global -Develop a Summer Research Program (“genomics Boot camp”) for selected Undergraduates to increase the number of students with interest in genomics and infectious diseases (May 2015). -Develop a Visiting Faculty Program for underserved communities and post-conflict countries in order to train them on new teaching and research methods and applications under guided mentoring (June 2015). -Establish a short-term training programme specifically for women interest in genomics and infectious Diseases (July 2015) - Training videos and course materials to be made public on ACEGID website (March

2015)



ACEGID Leadership and Project Manager

DURATION: On-going throughout project

Commencement: May 2014


PRIMARY CONSTITUENTS: ACEGID students, faculty members.

PARTICIPANTS: Underserved communities (Students and faculty, women) ACEGID leadership, project manager.

ASSUMPTIONS Successful commencement of the programme, functional ICT

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1. Website design, course/training materials development, online teaching materials

$10,000 $10,000

2. Students cost $17,000 $22,000 $39,000

3. Faculty cost $10,000 $12,000 $22,000

4. High School Science Teacher Training Programme

$5,000 $5,000 $10,000

5 Genomics training for female Scientists.

$8000 $10,000 $18,000

5. AG- Community outreach $3,400 $4,400 $7,800

TOTALS $3,400 $15,000 $35,000 $53,400 $106,800

ACE TEMPLATE

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Action Plan: ACE Action Plan for Attracting Regional Faculty and Students Timeframe: November 01, 2014 – April 30, 2018 Activity: 3.2 Facilitate national and regional student and faculty exchange programme

RESULT To facilitate national and regional student exchange programme within educational institutions as well as sector organizations including health organizations (Ministries of health, West Africa Health Organization), health facilities and R&D companies.

ACTIVITY Development of an exchange programme for students and Faculty members within Nigerian Institutions as well as with regional Institutions.

OUTPUT Establishment of a regional student and faculty student exchange programme that involves academic institutions and sector organizations The exchange programme will also engage R&D companies, sector organizations (Ministries of Health and WAHO) for internship for their professional at ACEGID as well as having ACEGID students and Faculty members conducting internship in these organizations.

OUTPUT INDICATOR Number of students, faculty members and exchanged for interns trained in the organisational sector or by ACEGID

SOURCE OF VERIFICATION -Trainees or interns reports -Project manager


- Call for students and faculty exchange (November 2014) - Establish professional relationship with Ministries of Health, Biomedical and

Biotechnology companies in West Africa (December 2014) - Establish internship track (May 2015) - Training industry leaders (June 2015) - Illumina technician shadowing in year 1 during Foundational Training at the Broad

Institute (Cost listed under Activity 1.1)

PROCUREMENT Not applicable.


ACEGID Leadership, project manager

DURATION: Length of program

Commencement: November 15, 2014

Completion: April 30, 2018

PRIMARY CONSTITUENTS: ACEGID partner universities, Students, faculty members, ACEGID members.

PARTICIPANTS: ACEGID Leadership, Universities, Sector organizations, students, faculty members, R&D companies, the scientific community.

ASSUMPTIONS - Partnership and agreement signed with sector organization and R&D companies.

FINANCIAL IMPLICATIONS ACEGID budget.



AG-T-22 Internships, students and faculty exchange

- - - $120,000 - - $120,000

TOTALS 0 0 0 $120,000 0 0 $120,000

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Action Plan: ACE Action Plan for Attracting Regional Faculty and Students Timeframe: May 1, 2014 – December 31, 2018 Activity: 3.3 Facilitate broad regional student recruitment through language support

RESULT Attract regional students, especially from Francophone Africa with provision of English language support.

ACTIVITY Facilitate broad regional student and faculty attendance through language and accommodation support.

OUTPUT Develop a strategy for attracting regional/international students (especially French speaking countries) through the establishment a language laboratory in the Department of English at Redeemer’s University. In addition, these students will receive three (3) months training in English language proficiency in the Department of English.

OUTPUT INDICATOR Two-language website, number of students that attended the English proficiency course for French speaking Africans.

SOURCE OF VERIFICATION -ACEGID Website -Department of English -Project manager


- Develop bilingual website by September 2014 - -Printing of recruitment posters in French language (October 2014) - Develop translation process (November 2014) - Agreement with University about rental of students accommodation for French

speaking students (November 2014) - -Translation of materials and information in French language (May 2014 till end of the

project). - -English as a second language course (Starting July 2015 for 3 months)

PROCUREMENT Not applicable.


ACEGID leadership, project manager

DURATION: 4 Years Commencement: May 2014 Completion: December 2018

PRIMARY CONSTITUENTS: ACEGID partner universities, Students, faculty members.

PARTICIPANTS: ACEGID Leadership, students, faculty members, University management

ASSUMPTIONS Successful commencement of the programme, ICT and Website running.



1st

Qtr 2nd

Qtr 3rd

Qtr 4th

Qtr 5th

Qtr 6th

Qtr Total

Establish a language laboratory/studio

$50,000 $50,000

Cost of materials for three month language training

$20,000 $20,000

1 Accommodation for English language course students

0 0 0 $30,000 0 0 $30,000

TOTALS 0 0 0 $100,000 0 0 $100,000

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Action Plan: ACE Action Plan for Attracting Regional Faculty and Students Timeframe: May 1, 2014 – December 31, 2018

Activity: 3.4 Organization of short courses for national and regional students, faculty, sector organizations and for professionals.

RESULT Train national and regional students, faculty members, sector organization members and professionals in specific techniques and skills in genomics of infectious diseases

ACTIVITY Short-courses to provide trainees with specific skills in genomics of infectious diseases.

OUTPUT Generate a critical mass of students with specific skills in genomics of infectious diseases.

OUTPUT INDICATOR: Number of students attending short-courses

SOURCE OF VERIFICATION:

-ACEGID Website -Project manager


-Development of different modules for short-term courses (From February 2014) -Short-term courses in molecular biology and genomics of infectious diseases (Commencement in March 2014)



ACEGID leadership, project management

DURATION: 4 years Commencement: May 2014 Completion: April 2018

PRIMARY CONSTITUENTS: ACEGID partner universities, Students, faculty members.

PARTICIPANTS: ACEGID Leadership, students, faculty members, University management

ASSUMPTIONS Successful commencement of the programme, ICT and Website running.


Budget Line Analysis 1st Qtr 2nd Qtr 3rd Qtr 4th Qtr 5th Qtr 6th Qtr Total

1 Organize and teach short courses 0 0 0 $100,000 0 0 $100,000

TOTALS 0 0 0 $100,000 0 0 $100,000

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Action Plan: ACE Action Plan for Collaboration with International Partners Timeframe: May 1, 2014 – April 31, 2015 Activity: 4.1 Institutionalize international faculty exchange programs between ACEGID

academic partners

RESULT Establishment of a formal faculty exchange program between ACEGID partner institutions.

ACTIVITY Institutionalize faculty exchange programs between RUN, USL, UCAD, and the University of Ibadan.

OUTPUT ACEGID partners Institutions exchange faculty members to strengthen one another in the area of teaching and research in genomics of infectious diseases.

OUTPUT INDICATOR Number of faculty members exchanging to ACEGID and number of partners exchange of faculty member between universities, number of regional publication going forward

SOURCE OF VERIFICATION -Project manager


- Discuss formal exchange program at Launch Meeting (April 2014) - Contact university officials and establish lines of communication between university

administrative offices - Implement pilot exchange program with 1-2 faculty members for fall semester, 2014.



ACEGID leadership, project management

DURATION: Semester-long exchange programs

Commencement: Spring 2015

Completion: End of year 1

PRIMARY CONSTITUENTS: Universities and students in West Africa

PARTICIPANTS: ACEGID leadership, ACEGID Academic Partners, University administrative offices

ASSUMPTIONS - Institutional support of academic administrative offices - Willingness of university professors to temporarily relocate across national/regional borders

for teaching - Visas and lodging costs covered by academic offices


ACEGID Budget Analysis


4.1 Institutionalize faculty exchange (airfare, lodging, visas, accommodations)

$116,000 $116,000

TOTALS 0 $116,000 0 0 $116,000

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Action Plan: ACE action plan for ACEGID infrastructure Timeframe: May 1, 2014 to April 30, 2015 Activity: 5.1 Genomics teaching lab redesign and remodel – current Redeemer’s

campus.

RESULT Resources to attract students and faculty and conduct state-of-the-art life science research.

ACTIVITY 5.1 Genomics teaching lab redesign and remodel – current Redeemer’s campus

OUTPUT Remodel and refurbishment complete

OUTPUT INDICATOR: Remodelled genomics teaching laboratory with necessary equipment for sustained infectious disease related research and lab classwork.

SOURCE OF VERIFICATION Documented images of remodel, faculty surveys


- Remodel plans outlined in May 2014. - Remodel plans finalized and submitted to RUN in June 2014. - Sequencer equipment installed by October 2014. - Successful completion of inaugural sequencing run April 2015. - Lab space ready for student instructions by end of first semester 2014/2015

academic session.

PROCUREMENT Purchased through RUN


ACEGID management team, Project management

DURATION: 12 months Commencement: May 1, 2014 Completion: COMPLETED

PRIMARY CONSTITUENTS: RUN faculty of the

ACEGID Network (including site directors, trainees, students, and technical staff)

PARTICIPANTS: RUN, PROCURNMENT

ASSUMPTIONS Successful engagement of local contractors for construction, RUN administrative approval



1st Qtr 2

nd Qtr 3

rd Qtr 4

th Qtr 5

th Qtr 6

th Qtr Total

AG-I-7 Genomics teaching lab redesign at RUN

$40,000

$40,000

TOTALS $40,000

$40,000

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Action Plan: ACE action plan for ACEGID Teaching infrastructure Timeframe: May 1, 2014 to April 30, 2015 Activity: 5.2 Design of ACEGID Center – Teaching and lab research core facility

RESULT Resources to teach students and attract faculty and conduct and sustain state-of-the-art life science research for the long-term.

ACTIVITY Design of ACEGID Teaching Center

OUTPUT Education facility- Successful architectural design of ACEGID new center for faculty and students.

OUTPUT INDICATOR Detailed blueprints for centre DONE AND CONSTRUCTION INITIATED

SOURCE OF VERIFICATION Documented images of design, program outreach materials, external inspectors


During the first year of the project the focus will be on the planning and design phases of the new Center.

- Selection and reservation of Center land at new campus by June 2014 - Enlist architecture firms and consultants (December 2014) - Design of new Center complete by end of year 1, March 2015.

.

PROCUREMENT

Consultants to facilitate Center design working with RUN faculty, land procured from RUN, construction firms hired


ACEGID Leadership team, Redeemer’s University management, Project manager.

DURATION: 2 years

Commencement: May 2014 Completion: April 2016

PRIMARY CONSTITUENTS: RUN

management, ACEGID Leadership, Architectural Team

PARTICIPANTS: RUN, PO, outside contractors (Architectural

team)

ASSUMPTIONS

Successful engagement of local or international contractors for design, RUN administrative approval, local building regulations, building supplies availability

FINANCIAL IMPLICATIONS

Budget from ACEGID


1st Qtr 2

nd

Qtr 3

rd Qtr 4

th Qtr 5

th Qtr 6

th Qtr Total

AG-I-9

Building design

$50,000.00

$50,000.00

AG-I-17

Operating Cost

$40,000

$40,000

TOTALS $90,000

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Action Plan: ACE action plan for ACEGID infrastructure Timeframe: May 1, 2014 to April 30, 2015 Activity: 5.3 Construction of ACEGID Center – Teaching lab, research

lab and core facility buildings at new Redeemer’s campus

RESULT Resources to attract students and faculty and conduct and sustain state-of-the-art life science research for the long-term.

ACTIVITY 5.3 Design and construction of ACEGID Center – administration, research lab

and core facility, and guesthouse buildings at new Redeemer’s campus

OUTPUT A NEW EDUCATION FACILITY/CENTER FOR FACULTY MEMBERS AND STUDENTS-EDUCATION FACILITY

Commission; construct laboratory, and facilities at RUN to create a modern high-throughput genomics research and core facility to house equipment for state-of-the-art infectious disease genomics research. The laboratory facilities will enable sustainable genomics research and commercial research services for RUN, ACEGID partners, and the surrounding region. Facility will also be used for accommodation of foreign and international scholars that are visiting the University. Administration buildings will house ACEGID leaders, faculty, and support staff. The added quality and a new and modern ACEGID center will be a major recruiting tool for new faculty at RUN and other ACEGID institutions.

ACEGID recognizes that Redeemer’s University is a fairly young institution and as such still lacks some physical structures. We also recognize the importance of education (capacity building) versus physical structure-based project. The field of genomics is new at Redeemer’s and the entire West African region. To effectively produce the capacity building that this project requires, we therefore need to procure physical equipment that will teach the field of genomics to produce the student education that is desired. In the field of genomics, the buildings and the physical equipment play a major role in capacity building. ACEGID recognizes that student education is primary and important in building the required capacity; we will bride the gap between education and research by channelling the H3 Africa grant to some aspect of the research program

OUTPUT INDICATOR Detailed blueprints for centre DONE AND CONSTRUCTION INITIATED

SOURCE OF VERIFICATION Documented images of design, program outreach materials, external inspectors


During the first year of the project the focus will be on the planning and design phases of the new center. - Center design considerations deliberated at launch meeting in April 2014 - Design of new center complete by end of year 1, May 2015. - Ground-breaking ceremony of new ACEGID campus Center in

November, 2015 - Center grand opening to be held before the end of the project term in

2018.

PROCUREMENT Consultants to facilitate center design working with ACEGID Administration and RUN faculty, land procured from RUN, outside construction firms hired

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ACEGID team (Christian Happi and Deputy Onikepe Folarin and Site Manager Ken Onye)

DURATION: Length of contract Commencement: May 2014


PRIMARY CONSTITUENTS: RUN faculty of

the ACEGID Network (including site directors, trainees, students, and technical staff)

PARTICIPANTS: RUN, PO, outside contractors

ASSUMPTIONS Successful engagement of local contractors for construction, RUN administrative approval, local building regulations, building supplies availability



1st Qtr 2

nd Qtr 3

rd Qtr 4

th Qtr 5

th Qtr 6

th Qtr Total

AG-I-1 ACEGID administration center building

$350,000.00

$350,000.00

AG-I-2 Admin building furnishings

$120,000.00

$120,000.00

AG-I-3 Research lab building $490,000 $490,000

AG-I-4 Lab furnishings $190,000 $190,000

AG-I-5 Center guesthouse $100,000 $100,000

AG-I-6 Guesthouse furnishings $50,000 $50,000

AG-I-8 Construction labour $100,000 $100,000

AG-I-9 Building design 0 0

AG-I-10 Internet Charge at Redeemers University ($100/month) x 48 mo

$300 $300 $300 $300 $300

$300 $1800.00

AG-I-12 Generator/Car Fuel ($400/month) x 48 mo

$1200 $1200 $1200 $1200 $1200

$1200 $7200

AG-I-13 Electricity Costs $625 $625 $625 $625 $625 $625 $3750

AG-I-15 128 GB Servers for computing clusters

$6250 $6250 $6250 $6250 $6250

$6250 $37500

AG-I-16 Equipment Service Charge = $71,770/yr.

$71,770

$71,770

AG-I-17 Operating Cost $8,830

$8,830

$8,830

$8,830

$8,830

$8,830

$52,980

TOTALS $17205 $17205 $17205 $72205 $17205 $1267205 $1,600,000

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Summary of Timed Activities for

Entire Project Period

ACTION PLAN 1 Start Date End Date Status

M.S program-recruit faculty/students Apr-15 Apr-18 On going

Ph.D. program -recruit faculty/students Apr-15 Apr-18 On going

Procure teaching lab equipment 14-Jul Dec-14 On going

Foundational training course Jul-14 Sep-14 First year completed

Purchase Equipment and reagents Jul-14 Dec-14 On going

M.S. program- Train students Apr-15 Apr-18 Recruitment in progress

Ph.D. program-Train Students Apr-15 Apr-18 Recruitment in progress

Education evaluation report Apr-15 Apr-15 Annually till program ends

Advanced training course Jun-15 Aug-17 Each year of the (for 3 years)

On-site workshops Oct-15 Apr-18 Three times each year

Monetary Valuation Jun-15 Jun-18 Once a year

ACTION PLAN 2

Train Project Manager at Harvard Apr-14 Jun-14 Completed

Procure general lab equipment/supplies Jun-14 Dec-15 On going

Recruit and hire all key personnel Jun-14 Aug-14 Uncompleted

ACTION PLAN 3

Develop Outreach program Aug-15 Feb-15 Uncompleted

Develop ACEGID Website Jun-14 Aug-14 Completed

ACEGID Biotech Internship Aug-15 Aug-18 Uncompleted- yet to start

ACEGID Government Internship Aug-15 Aug-15 Uncompleted- yet to start

ACTION PLAN 4

Implementation Plan Meeting May-14 Completed

Pilot Test qPCR Panel Oct-14 Apr-15 On going

Miseq Validation Test Run Oct-14 Feb-15 On going

Faculty Exchange Program Development Oct-14 Feb-15 Delayed due to WB funding

External Advisory Group Meeting Jun-14 Jun-17 First meeting already took place

ACTION PLAN 5

Genomics lab remodel Jun-14 Dec-14 Completed

Plan/design - ACEGID Center Jan-15 Apr-15 In progress

Procure core facility equipment Oct-14 Apr-15 On going

Construction - ACEGID Center Jun-15 Oct-16 Not commenced

acegid project implementation plan pdf 2014-2018

Documents