Department of Bioinformatics

Chhatrapati Shahu Ji Maharaj University

Kanpur

(NAAC Reaccredited in 2015)

(UP State Govt. University)

Mission of Bioinformatics

The Department of Bioinformatics was established in 2004 year in University Institute of Engineering

and Technology, CSJM University. Bioinformatics is the integration of biological sciences,

information technology and computer sciences and has become an essential tool of all biological

research activities. At the Department of Bioinformatics, UIET, CSJM University Kanpur, it is our

goal to train young minds to contribute to this now burgeoning field of science. We strive to provide

them with excellent teaching and laboratory facilities as well as an environment that grooms them to

be leaders in the field.

We have a distinguished core Bioinformatics faculty whose varied research interests include drug

designing, molecular structure prediction and visualization, genomics, transcriptomics and

proteomics, metabolic modeling and system biology. The program is truly interdisciplinary with

collaborating faculty from Computer Science, Biological Sciences, Information Technology and

Mathematics. The program also benefits immensely from intellectual interactions with premier

institutes such as the Indian Institute of Technology and Indian Institute of Pulses Research in its

vicinity.

. We invite you to explore the program in more detail through this web-site and encourage you to

personally visit the campus. Thank you for your interest in our program

Bioinformatics is the use of information technology in the field of Biotechnology, Biochemistry, Life

Sciences, Medical Sciences and Computer Sciences. It utilizes the application of computer

technology for scrupulous analysis and management of biological data. It is emerging

interdisciplinary research field and is increasingly more being used to get better the quality of life.

At present huge amount of data is being generated in the field of biological sciences, so computers

are used to pull together, analyze, accumulate and combine the biological data which can improve

the living standards of human beings.

Courses offered by Department of Bioinformatics

Year of Establishment 2004

1- M.Sc. Bioinformatics

Duration: 2 years (Four Semester).

No of seat: 40

Mode of Admission: - Through University Entrance Examination

Eligibility Criteria: Bachelor's Degree in Science( Special or General with Biochemistry,

Biotechnology, Bioinformatics, Microbiology, Electronics, Computer Science, Agriculture Science,

Pharmacy, Botany, Zoology, Mathematics, Physics) or equivalent with minimum 50% of marks for

General/OBC categories and 5% relaxation for SC/ST.

2- Advanced Post Graduation Diploma in Bioinformatics

Duration: 1year (Two Semester)

No of seat: 20

Mode of Admission: - Through University Entrance Examination

Eligibility Criteria: Master's Degree in Sciences (Special or General with Biochemistry,

Biotechnology, Bioinformatics, Microbiology, Life Science, Botany, Zoology, Mathematics,

Physics, Electronics, Computer Science, Agriculture Science, Pharmacy, B. Tech (In any engineering

branch), MBBS, BDS, BAMS, BUMS or equivalent with minimum 50% of marks for General/OBC

categories and 5% relaxation for SC/ST.

Availability of Entrance Form: February to Last Week of March, for admission queries kindly visit

the University Website. www.kanpuruniversity.org

http://www.uietkanpur.com/bi.php

Fee Structure of Courses

Fee M.Sc. Bioinformatics-

First Year

(I & II Semester)

M.Sc. Bioinformatics-

Second Year

(III & IV Semester)

Advanced P.G. Diploma in

Bioinformatics

One year (I & II Semester)

Tuition Fee 25,000/- 25,000/- 25,000/-

Examination Fee 3,000/- 3,000/- 3,000/-

Enrolment Fee 100/- ------ 100/-

Examination

Form Processing Fee

100/- 100/- 100/-

Group Insurance 443/- 443/- 443/-

Total 28,643/- 28,543/- 28,643/-

Hostel Availability and Allotment

The University has three well-furnished girls’ hostels with a total capacity of 500 inmates, a boy’s

hostel with the capacity of 400 inmates. All the hostels have mess facilities at very moderate rates,

24 hour power supply, common hall, TV room, reading rooms, telephone, recreational and sports

facilities with a tight security system. The students are allowed to use their own computer in the

rooms. Institute has limited hostel facility and therefore hostel cannot be made available to all newly

admitted students. In view of shortage of Hostel, the students belonging to Kanpur District are not

eligible for allotment of Hostel as a matter of policy.

Boys Hostel Fees : Rs. 18050/- per year (Rent only)

Girls Hostel Fees : Rs. 18000/- per year (Non-attached bathroom)

: Rs. 20000/- per year (Attached bathroom)

: Rs. 12000/- per year (For low income, after producing income certificate)

: Rs. 1500/- Security money for girls

Rs. 50/- Form fees for girls

Note: Mess fees as per actuals and seprate from the above

Scholarship: Scholarship and Fee Reimbursement is provided as per Govt. Rule.

(http://scholarship.up.nic.in/)

Facilities

Hardware

Items Qty. Configuration

High

Performance

01

Master

2 * Intel Xeon Quad Core

3.00GHZ/12MB L2

Cache/1333Mhz FSB (x5450),

Intel 5000x chipset based Intel

Computing

Cluster Server

motherboard 8*2 GB DDR2 FB

DIMM RAM (667Mhz), 1*146 GB

3*300 GB SAS HDD, 19” TFT

LCD Monitor, 107 Keys

Mechanical Keyboard & 3 Bt

Optical Mouse.

Cluster Server

Workstation

03

Slave

Intel Core 2 duo Processor

E8200@2.66Ghz, 6MB L2 Cache,

1333Mhz FSB, Intel G31 express

Chipset or better, 2*1GB DDR II

RAM(800Mhz) 4DIMM slots,

160GB SATA HDD(3.0gbps),

DVD-RW, 19’’ TFT LCD wide

screen Monitor, 107 Keys

Mechanical Keyboard, Optical

mouse, Integrated LAN Ethernet

Network card 10/100/1000

Workstation 02

2 * Intel Xeon Quad Core 3.00

GHZ/12 MB L2 Cache/1333Mhz

FSB (5450), 8*2 GB DDR2 FB

RAM (667Mhz) 3*300 GB SAS 15

krpm Hot plugable HDD Nvidia

QUADRO FX 1700,

512MB Graphics card, 19” TFT

LCD wide screen Monitor, DVD-

ROM

Printer 02 HP Laser jet (black and white) and

Office jet (colour)

LCD Projector

with screen tripod

screen

01

High pressure mercury lamp 210

W, power consumption 310 W,

zoom ratio 1.6X,3000 ANSI lumen,

resolution 1024x768, XGA contrast

=400x1 radian

UPS 02 30KVA

Laboratory

Bioinformatics

& Basic

Programming

Lab (BI-301)

40

Intel P4 Processor

E8200@2.40Ghz CPU , 1 GB

RAM, 80 GB HDD

Internet Facilities

24 Hours High bandwidth Internet Facilities and fully A.C. Laboratory

Softwares

CADD &

Molecular

Modelling Lab

(BI-302)

40

CPU: Intel Core 2 duo Processor

E8200@3.00Ghz, 2 GB RAM, 160

GB HDD

S.No. Public Domain Softwares

1. Molecular Visualization

Software

Rasmol, Pymol, Cn3d

2. Structure Prediction &

validation

Swiss PDB Viewer, GOR, Swiss model

3. Homology modeling Geno3D, Modeller

4. Submission Tool Sakura, Bankit, Webin

5. Alignment Tools BLAST, Clustal package, Tree view, Jalview, T-coffee

6. Docking Software Hex , Molegro, Auto Dock

7. Molecular modeling

software

DTMM, ChemSketch, Viewer Light

8. Editing tool Bio-Edit

9. Chromatogram trace

viewer

FentchTV

10. Phylogenetic analysis Treeview, Phylip, Clustal W/X/Omega

11. Online Databases NCBI, DDBJ, EMBL, GenBank, PIR, Swissprot, PROSITE,

Print, Block, PDB, CATH, SCOP, P-fam

12. Systems Biology &

Metabolomics

Cytoscape, Cell Designer, Copasi, Gepasi, Systems Biology

Workbech (SBW)

13. Others Gene Designer, E-Cell, V-Cell, ORF Finder. MFOLD, RNA

FOLD, EMBOSS, GROMAC, GROMOS, AMBER, R

(STATISTICAL PACKAGE), GENESIS, CLUSTAL W,

Chime, CELL-DESIGNER, LUDI, MOLMAKER, System

Faculty

Name of Faculty Designation Qualification Department Area of Interest

Er. Mamta Sagar E.mail mamta1060@yahoo.com

M.No.- 7499292773

Assistant

Professor &

Head

Ph.D. Bioinformatics

(Pursuing),

M.Tech I.T.(Bioinformatics)

IIIT-Allahabad,

M.Sc. (Microbiology), CCS

University , Meerut

CSIR- NET, GATE

Bioinformatics

Modelling and visualization

of protein conceived to act

as drug target, structure-

based drug design, in silico

vaccine design for Liver

cancer and HIV and

application of agent based

models, artificial neural

networks.

Dr. Manish Kumar Gupta E.mail

manish.kumar.gupta@gmail.com

M No.- 9307267812

Assistant

Professor

Ph.D. in

Bioinformatics Dr.

APJ Abdul Kalam

Technical University,

Lucknow M.Tech in

IT (Bioinformatics)

IIIT-Allahabad,

M.Sc.(Biotechnology)

University of

Hyderabad,

Qualified CSIR-

JRF_NET, GATE

Bioinformatics

Systems Biology, Rnomics,

RDD, Database Design and

Development.

Er. Brijendra Singh

brijendra_singh2004@yahoo.co.in

Mob. no.- 8005384692

Assistant

Professor

Ph.D. Bioinformatics

(Pursuing), M.Tech

I.T. (Bioinformatics)

IIIT-Allahabad, M.Sc.

(Microbiology) Dr.

RMLA University

GATE

Bioinformatics

Drug Design And Molecular

modelling, microarray

analysis.

Dr. Varsha Gupta

Associate

Professor

(Adjunct

Faculty)

Ph.D. (Mathematics) Mathematics Engg. Mathematics.

Dr. Dharmendra Kumar Singh

Assistant

Professor

(Adjunct

Faculty

Ph.D. (Mathematics) Mathematics Biostatistics, Mathematics.

Dr. Manoj Kumar Singh

Assistant

Professor

(Adjunct

Faculty)

Ph.D. (Mathematics) Mathematics Biostatistics, Mathematics.

Er. Manish Dua

Assistant

Professor

(Adjunct

Faculty)

M.Tech (Computer

Science.) CSE JAVA Programming.

Technical Staff

Biology Markup Language & BSML,Vector Alignment

Search Tool, Ligplot

Mr. Luxman

Rajput

(Technical

Assistant)

B.Sc. (Math), M.A., DCA

(Hardware Networking) luxmanrajput@gmail.com Mob. no.-9956096532

Career@ Bioinformatics

Bioinformatics has profound impact in various fields like human healthiness, environment,

Biotechnology agriculture and energy to enhance the biomedical research and development. It is also

used in the area of molecular medicine for Drug designing which can cure many lethal Diseases.The

ultimate goal of bioinformatics is to uncover the prosperity of biological information hidden in

sequences, structure, literature and other biological data. It obtains a clear insight into the

fundamental biology of organisms and to use this information to enhance the standard of life for

human being.

Today, Bioinformatics is speedily growing field all over the world. Hence, one can begin a career in

Bioinformatics and find out employment opportunities in Biotechnology, Bioengineering,

Biomedical and pharmaceutical sciences, software development, in industries, hospitals and research

institutions.

According to the new market research report from Industry Experts ‘Bioinformatics – A Global

Market Overview', global market for bioinformatics is estimated at about $2.4 billion in 2011 and

further projected to reach $7.6 billion by 2017 registering a CAGR of 18.3% during the period 2007-

2017.

Scope of Bioinformatics

Due to increasing demand of Bioinformatics candidates, a career in Bioinformatics offer good

prospects. Bioinformatics specialists have a variety of career opportunity. Most of these trained

persons are absorbed in pharmaceutical and Biotech companies. They can also work with leading

scientific research organization of public and private sector. They can also occupy with government

and private hospitals. These experts also can find employment in industries manufacturing different

biomedical products. One can also take up teaching jobs in public and private University/Institute

offering bioinformatics as a subject. The extent of bioinformatics is in areas like database design and

maintenance, sequence assembly, proteomics, clinical pharmacologist, sequence analysis,

bioinformatics software developer and bio-analytics.

Bioinfomatician

Pharma Industry/Biotechnology Industry/Software Industry/

Database Designing and Management

Research Organization(CSIR, ICMR, ICAR, Biotech

Park)/Teaching Organization

Job Opportunities and Bioinformatics Companies

Excellent job opportunities are available for bioinformatician in Biotech, Pharmaceutical, Software

development companies in India as well as abroad. The names of some of the companies are:-

Tata consultancy services (TCS), Bigtec , Strand genomics, Wipro, Mphasis, Bioworld, Zensar,

Satyam computer services, Avestha gengraine technologies, Metahelix life sciences, IBM india

Research labs (irl), Sun Microsystems, Dr.Reddy's laboratories limited, Ranbaxy, Nicholas Piramal,

Biocon/syngene/clingene, Jubilant biosys ltd. (JBL), Molecular connections, Accelrys, Ocimum bio,

Reliance life sciences, Mathworks, Schrodinger, GVK Biosciences, DSQ Biotech, Centre for

Development of Advanced Computing (C-DAC), AstraZeneca Research Centre, Silicon Genetics

and Tessella, Vlife, Tripos :A Certara™ Company

Govt. Of India Initiative in the field of Bioinformatics

The Department of Biotechnology (DBT), Government of India has instituted Bioinformatics

National Certification (BINC) (http://binc.scisjnu.ernet.in/) in 2005 and conduct examination every

year in the month of February with the objective of evaluating the Bioinformatics knowledge & skills

of students. The qualifying candidates will be awarded a certificate. This certification would facilitate

industries and potential employers in recruiting Bioinformatics professionals.

After Qualifying this examination, the Students can be benefited by:-

Cash awards to the top ten candidates in the merit list.

DBT BINC junior research fellowships (DBT-BINC-JRF) to all qualified candidates.

Department of Biotechnology (DBT), Ministry of Science and Technology, Government of India,

Biotech Consortium India Limited (BCIL) ( http://www.bcil.nic.in/) is coordinating a scheme of

practical industrial training for B.Tech./ B.E./ M.Sc./ M.Tech./ Advanced Post Graduate Diploma in

Bioinformatics and BINC qualified students. The students are placed for training in Bioinformatics

& Biotechnology companies willing to impart practical training to these candidates. The training is

for a period of six months during which every trainee is paid a stipend of Rs. 8000/- per month.

Remuneration

It is a very much remunerative career choice. Persons working in government research organization

and hospital get pay as fixed by government. It can be Rs 24,000 to Rs 36,000 depending upon job

profile and experience. Professors working in University/Institute can get basic pay of Rs 40000 to

Rs 60000 per month at entry level. Those working in private sector Pharma companies or

Multinational companies get a pay of Rs 4, 50,000 - Rs 6, 00,000 per annum.

Placement at the Department

Placement Organization Name of Organization

Research Organization in

India IIT-Italy, Institute of Veterinary Science-Viana,Austria.

Universities

Sharda University-Meerut, GB Pant University-Pantnagar, CSJM University Kanpur,

Lucknow University, Central University Hyderabad, IIIT-Allahabad, Amity University-

Lucknow & Noida, Hindustan college of management science.

Pharmaceutical Industry Zydus cadila, Ranbaxy, K life Sciences, Kusum Pharmaceutical.

Chemicals industry Aroma Chemicals, Tansy Chemicals, Cremaline Chemicals.

Software and BPO

Industry

IBM, TCS, Wipro, Genpact, Cell work, Biocon, ACME Telepower,Tova optics India

Pvt. Ltd.

Banking Sector Punjab National Bank, State Bank of India, ICICI Bank.

Research Publication Ocimum Publication Group

Projects

Area of

Research

Projects

Software Development, Database Development, Rational Drug Designing, Molecular Docking and Virtual

Screening, System Biology, Pathways Modeling and simulation analysis, RNA Secondary Structure

Prediction, Rational Design of siRNA and miRNA, QSAR, Metabolomics, Molecular Modelling and

Visualization, in silico Vaccine Design, Agent Based Models, Artificial Neural Networks, Next Generation

Sequencing, Microarray Analysis.

List of Publications Department of Bioinformatics:

Research Article:

1. Mamta Sagar, Rajesh Kumar Pathak, Rishi Kumar Pandey, Dev Bukhsh Singh, Neetesh Pandey, Manish

Kumar Gupta (2014) Binding affinity analysis and ADMET prediction of epigallocatechine gallate

(EGCG) derivatives for AP-1 protein: a drug target for liver cancer. Network Modeling Analysis in Health

Informatics and Bioinformatics 3:66 (ISSN: 2192-6662 ; Online ISSN: 2192-6670)

2. Gupta MK, Misra K (2014) Atom based 3D-QSAR, molecular docking and molecular dynamics

simulation assessment of inhibitors for thyroid hormone receptor α and β. Journal of Molecular Modeling

20:2286 (Print ISSN:1610-2940 ; Online ISSN:0948-5023 )

3. Manish Kumar Gupta, Dev Bukhsh Singh, Rohit Shukla, Krishna Misra (2013) Comprehensive metabolic

modeling of thyroid pathway.in relation to thyroid pathophysiology and therapeutics. OMICS: A Journal

of Integrative Biology. 17(11):584-593 (Print ISSN: 1536-2310 Online ISSN: 1557-8100)

4. Dev Bukhsh Singh, Manish Kumar Gupta , Durg Vijay Singh, Sushil Kumar Singh, Krishna Misra (2013)

Docking and In silico ADMET studies of noraristeromycin, curcumin and their derivatives with

Plasmodium falciparum SAH hydrolase: A molecular drug target against malaria. Interdisciplinary

Sciences: Computational Life Sciences. 5:1-12 (ISSN: 1913-2751; Online ISSN 1867-1462)

5. Singh DB, Gupta MK, Misra K, (2013) Comparative Docking and ADMET Study of Some Curcumin

Derivatives and Herbal Congeners Targeting beta-Amyloid. Journal of Network Modeling Analysis in

Health Informatics and Bioinformatics. 2(1):13-27 (ISSN: 2192-6662 ; Online ISSN: 2192-6670)

6. Gupta MK, Misra K, (2013) Modeling and Simulation Analysis of Propylthiouracil (PTU), an Anti-thyroid

drug on Thyroid Peroxidase (TPO), Thyroid Stimulating Hormone Receptor (TSHR) and Sodium iodide

Symporter (NIS) based on Systems Biology Approach. Journal of Network Modeling Analysis in Health

Informatics and Bioinformatics. 2(1): 45-27 (ISSN: 2192-6662 ; Online ISSN: 2192-6670)

7. Gupta MK, Agarwal K, Prakash N, Singh DV, Misra K, (2012) Prediction of miRNA in HIV-1 genome

and its targets through artificial neural network: a bioinformatics approach. Journal of Network Modeling

Analysis in Health Informatics and Bioinformatics. 1(4):141-151 (ISSN: 2192-6662 ; Online ISSN: 2192-

6670)

8. Kumar GM, Singh Dev Bukhsh, Krishna M (2012) Metabolic Modeling and Simulation Analysis of

Thyroid Disorder Pathways. J Comput Sci Syst Biol. 5(2):52-61 doi:10.4172/jcsb.1000090 (ISSN: 0974 -

7230)

9. Kumar GM, Prakash N, Pragya C, Krishna M (2011) Computational Analysis of SNPs in 10 kb Region of

Human Chromosome 1. J Comput Sci Syst Biol. 4: 033-034. doi:10.4172/jcsb.1000073 (ISSN: 0974 -

7230)

10. Gupta SK, Singh S, Gupta MK, Pant KK, Seth PK (2010) Definition of Potential Targets in Mycoplasma

Pneumoniae Through Subtractive Genome Analysis. J Antivir & Antiretrovir 2: 038-041 (ISSN: 1948-

5964)

11. Singh S, Gupta SK, Sabir G, Gupta MK, Seth PK (2009) A database for anti-diabetic plants with clinical

/ experimental trials. Bioinformation. 31;4(6):263-268 (Online ISSN 0973-2063; Print ISSN 0973-8894)

12. Mamta Sagar, Padma Saxena, Neetesh Pandey and Dev Bukhsh Singh, (2013) Modelling transmembrane

region in G8 protein of Human and other organisms. Int J Comput Bioinfo In Silico Modeling 2(4): 152-

157.

13. Pramod Kumar Yadav, G. Singh, B. Gautam. S. Singh, Brijendra Singh (2013) Molecular modeling,

dynamics studies and virtual screening of fructose 1,6 biphosphate aldose – II in community acquired

methicillin resistant Staphylococcus aureus (CA-MRSA). Bioinformation, 9(3):158-164.

14. Shrasti Gupta, Vijay Laxmi Saxena, Brijendra Singh (2013) Homology Modeling and Docking Studies of

Neuraminidase Protein of Influenza a Virus (H1N1) virus with Select Ligand – A Computer Aided

Structure Based Drug Design. International Journal of Pharmaceutical Science Invention, 2(6):35-41.

15. Mamta Sagar, Neetesh Pandey, Naseha Qamar, Brijendra Singh, Akanksha Shukla (2014) Domain

analysis of 3 keto acyl-CoA synthase using sequence and structure alignment approach in Vitis vinifera

and Oryza brachyantha. Interdisciplinary Sciences--Computational Life Sciences, 6: 1-14.

Review Article:

1. Singh Dev Bukhsh, Gupta Manish Kumar, A Kesharwani, Rajesh Kumar, Sagar Mamta, Dwivedi Seema;

Misra Krishna (2014) Molecular drug targets and therapies for Alzheimer’s disease. Translational

Neuroscience 5(3): 203-17 (Print ISSN:2081-3856 Online ISSN:2081-6936)

2. Gupta MK, Misra K (2016) A holistic approach for integration of biological systems and usage in drug

discovery. Journal of Network Modeling Analysis in Health Informatics and Bioinformatics. 5(4) (ISSN:

2192-6662; Online ISSN: 2192-6670)

Photo Galleries (Laboratories)

(Seminar/Workshop/Conferences/Symposium)

Workshop on “Current Trend in Computing and Bioinformatics” in 2007. The chief guest of

the event was father of bioinformatics in India known as Prof. A.S Kolaskar, Former Vice-

Chancellor of Pune University. The Patron of the event was Prof. S.S. Katiyar Former Vice-

Chancellor of CSJM University kanpur.

National Educatin Day 2009 was celebrated on theme “ Education System in india:

Introspection” .The chief guest of the event was Prof. H.C Verma from IIT Kanpur.

National Educatin Day 2011

National Educatin Day 2011 was celebrated on theme “ Recent Trendes in Biosciences and

Bioengineering” .The chief guest of the event was Prof. R.Shankarramakrishnan, Dept of

Biosciences and Bioengineering , IIT Kanpur . Prof. Krishna Misra was guest of honour from

Indian Institute of Information Technology Allahabd . Special lecture was taken by Por.

Thesoun Bharoun from University of Mauritius.

National Education Day 2014

Bhabha Atomic Research Centre, Mumbai, Department of Atomic Energy, Govt. of

India, Organized A Seminar On “Many Dimensions Of Indian Atomic Energy

Programme” and Exhibition on “BARC Technologies” on February 25, 2015. The Chief

Guest of the event was Prof. Indiranil Manna, Director IIT Kanpur.

Contact Us

Department of Bioinformatics

University Institute of Engineering and Technology

CSJM University Campus – Kanpur

Email: bioinfo.csjmu@gmail.com

M.No.: 9307267812

8005384692