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Present Affiliations 

* MRC-LMB
* Trinity College
* University of Cambridge

Past Affiliations 

* Molecular Biophysics Unit
* Indian Institute of Science
* Center for Biotechnology
* Anna University

Resume of Madan Babu Mohan


Click here for the most recent resume - PDF of CV as on Sep 2013



See new group page at: http://mbgroup.mrc-lmb.cam.ac.uk/ 

The information below was last updated in Sep 2004


NameMadan Babu (firstname)
Mohan (surname)
Contact AddressMRC-Laboratory of Molecular Biology
Hills Road, Cambridge - CB2 2QH
England, United Kingdom
Permanent AddressC5 Anand Bhavan
26 South Boag Road
T. Nagar, Chennai - 600017
India
NationalityIndian
Date of Birth14th Nov 1979
Contact Phone+44 - (0)1223 - 402041 (Lab)
0044 - 7789838481 (Mobile)
Fax44 - 01223 - 213556 (MRC-LMB)
Emailmadanm@mrc-lmb.cam.ac.uk
Webpagewww.mrc-lmb.cam.ac.uk/genomes/madanm


Academic Background


  Course  AuthorityYearMark/Grade/Remarks

X standardBoard of Matriculation Education, TNMar 19951028/1100 (93.45%) State 3rd Rank
XII StandardBoard of Secondary Education, TNMar 19971153/1200 (96.08%)
B. Tech (Industrial Biotechnology)Anna University, Centre for BiotechnologyAug 1997 to May 2001CGPA: 9.8/10 (3.92/4.00)
University First / Gold Medallist
PhD (Computational Molecular Biology)University of Cambridge/MRC-Laboratory of Molecular BiologyOct 2001 to Jul 2004LMB-Cambridge Fellowship
Trinity Honorary External Research Studentship
Max Perutz prize for outstanding research



Academic Awards
  • Max Perutz Prize - "for outstanding research carried out at the MRC Laboratory of Molecular Biology" - 11th Oct 2004.
  • Visiting fellow at the NCBI, NIH for one month from 12th Dec - 12th Jan 2004.
  • ESF-JSPS fellowship (European Science Foundation - Japanese Society for the Promotion of Sciences ) to paricipate in 'Bioinformatics workshop' in San Felix, Spain (25th - 30th Oct 2003)
  • Runners up at the Young Bioinformaticians Forum held in Oxford University - Sep 2003.
  • Visiting fellow at the NCBI, NIH for two months from 5th Aug - 28th Sep 2002
  • ESF bursary of 600 Euros to attend "Genome to Life" summer school in Corsica, France (Jul 15th - 2 7th 2002)
  • DIMACS student travel award of $300 to attend DIMACS 2002 at Rutgers University
  • ISCB Student Award of $500 for RECOMB 2002 ISCB newsletter article
  • LMB-Cambridge Fellowship for the course of my PhD at MRC-LMB / University of Cambridge (from Oct 2 001)
  • Honorary External Research Studentship for three years at Trinity College, Cambridge University (f rom Oct 2001)
  • Recipient of Cambridge Overseas Research Scholarship (ORS)
  • Gold Medal for securing the first position in the University (Industrial Biotechnology - CGPA - 9.8/10)
  • Indian Institute of Science - Young Fellow from 1997 till the duration of the undergraduate course (3 years)
  • Indian Academy of Sciences - Summer Research Fellowship during 1999 & 2000
  • Selected for National Merit Scholarship based on XII std performance
  • Cash awards from Association of Matriculation Schools for 3rd rank in the state in Matric Exam
  • Cash award from Nesarathnam Educational Trust for 3rd rank in the state in Matric Exam
  • Shield from M.CT.M HSS for first in the school and for 3rd rank in the state in Matric Exam
  • Award from Rotary club for 3rd rank in the state in Matric Exam


Book chapter

  • Introduction to microarray data analysis - M. Madan Babu in Computational Genomics (Ed: R. Grant), Horizon Press, U.K . Pre-reprint & supplementary material
  • Contextual inference of protein function - Aswin S. N. Seshasayee & M. Madan Babu* in Encyclopaedia of Genetics, Genomics, Proteomics and Bioinformatics (Ed: S. Subramanian), John Wiley and Sons PDF

Research Publications (* indicates corresponding author; 1 indicates joint first authors)

2004

  • Statistical analysis of domains in interacting protein pairs - Nye, TM., Berzuini, C., Gilks, WR., M. Madan Babu, T eichmann SA., Bioinformatics, PDF
  • Clathrin-coated pit assembly: The AP2 complex serves as an integration hub to order the dynamic network of accessory prote ins - Praefcke, GJK., Ford, MGJ., Schmid, EM., Olesen, LE., Gallop, JL., Peak-Chew, S., Vallis, Y., M. Madan Babu, Mil ls, IG., and Harvey T. McMahon, EMBO Journal, PDF.
  • GenCompass: a universal system to analyse gene expression for any genome - N. Luscombe* and M. Madan Babu*, Trends in Biotechnolog y, PDF
  • Evolution of transcriptipnal regulatory networks - M. Madan Babu, PhD thesis submitted to the University of Cambridge. Thesis adviser: Sarah Teichmann.
  • Genome analysis of regulatory network dynamics - N. Luscombe*1, M. Madan Babu*1, H. Yu, M. Snyder, S. Teichmann* and M. Gerst ein*, Nature, PDF.
  • Structure and evolution of gene regulatory networks - M. Madan Babu*1, N. Lucsombe1, M. Gerstein, S. Teichmann*, Curr. Opin. Struc. Biol, PDF PDF of the cover image.
  • Gene regulatory network growth by duplication - Sarah Teichmann* and M. Madan Babu*. Nature Genetics, PDF, Supplementary material
2003

  • NCI: a server to identify non canonical interactions in protein structures - M. Madan Babu*. Nucleic Acids Research, PDF
  • Loss of sigma factors could have initiated pseudogene accumulation in the Mycobacterium leprae genome - M. Madan Babu*. Trends in M icrobiology, PDF, Supplementary material.
  • Evolution of Transcription Factors and the Gene Regulatory Network in E. coli - M. Madan Babu* and Sarah A. Teichmann. Nucleic Acid s Research, PDF, Supplementary material
  • Functional Determinants of Transcription Factors: Protein Families and Binding Sites - M. Madan Babu* and Sarah. A. Teichmann. Tren ds in Genetics PDF, Supplementary material.
2002

  • Conservation of coregulation in prokaryotes and eukaryotes - Sarah Teichmann and M. Madan Babu Trends in Biotechnonology PDF
  • DOLOP - Database of Bacterial Lipoproteins - M. Madan Babu and Krishnan Sankaran. Bioinformatics PDF
  • Shigella apyrase - a novel variant of bacterial acid phosphatases? - M. Madan Babu, S. Kamalakkannan, Y.V.B.K. Subrahmanyam and Krishnan Sankar an. FEBS Letters PDF
  • A C-H..O hydrogen bond stabilized polypeptide chain reversal motif at the C-terminus of helices in proteins - M. Madan Babu, S. Kumar Singh and P. Balaram. Journal of Molecular Biology PDF
  • Inventing polypeptide folds. Registering a helices and b strands using backbone C-H..O interactions - S. Kumar Singh, M. Madan Babu and P. Balaram. Proteins: Structure Function and Genetics, PDF.
Review Articles

  • Virulence factors of Bordetella pertussis - M. Madan Babu*, J. Bhargavi, S. Ranajeet Singh and S. Kumar Singh. Current Science, 2001, Vol 80 No. 12 : 1512-1522   PDF
  • Protein structure determination in the aftermath of genome sequencing - M. Madan Babu and P. Balaram. Current Science, in press
  • Bioinformatics of Bacterial Lipoproteins - Manuscript in preparation
General Articles

  • New Strains of V. cholerae - M. Madan Babu and K. Sankaran -7th Sep 2000, The Hindu, Science and Technology Section of the Indian National Newspaper. HTML    At the site
  • Bioinformatics - Aid for Genetic Data Management and Drug Discovery - M. Madan Babu - Nov 2000, CSI Communications of Computer Society of India. HTML
  • Computer applications in new drug discovery - M. Madan Babu and J. Bhargavi - manuscript in preparation.
  • Errors in Genome Annotation - M. Madan Babu Verve 2002 (Proceedings of Biotechcellence 2002, National Level Students Symposium in Biotechnology) HTML
  • Proteomics - M. Madan Babu. Verve 2001 (Proceedings of Biotechcellence 2001, National Level Students Symposium in Biotechnology)
  • Antifreeze Proteins - M. Madan Babu. Verve 2001 (Proceedings of Biotechcellence 2001, National Level Students Symposium in Biotechnology)
  • Bioinformatics - M. Madan Babu. Verve 2000 (Proceedings of Biotechcellence 2000, National Level Students Symposium in Biotechnology) HTML
Posters Presented

  • Protein Families and Regulatory Patterns in the Transcription Factors of E. coli at RECOMB 2002 - 18th - 21st April 2002, Washington DC, USA PDFs
  • Protein Families and Regulatory Patterns in the Transcription Factors of E. coli at DIMACs - Complexity in Biosystems conference - 8th - 10th April 2002, Rutgers University, USA PDFs
  • A Novel C-H..O hydrogen bond stabilized polypeptide chain reversal motif at the C-terminus of helices in proteins - 19th October 2001, MRC-LMB PDF
Publications in Conference Proceedings

  • Protein Families and Regulatory Patterns in the Transcription Factors of E. coli at RECOMB 2002 - 18th - 21st April 2002, Washington DC, USA PDFs - Poster Abstract
  • Integrating Bioinformatics, Medical Sciences and Drug Discovery - M. Madan Babu - accepted for presentation at the National Conference on Medical Informatics at Vijayawada, held during 24-25 Nov 2000. PDF
Undergraduate (B. Tech) Thesis

  • Analysis of C-H...O hydrogen bonding in helix terminus - Chapter I PDF
  • DATE - Database of TIM barrel enzymes - Chapter II PDF
  • Target selection for structural genomics and the structural status for the completed microbial genomes - Chapter III PDF
  • Computational identification of Chorismate mutase in the M. leprae genome - Chapter IV PDF
Summer Project Reports and Other Projects

  • Misannotation of TIM in P.falicparum genome HTML
  • TIM barrel analysis HTML
  • Analysis of CH...O hydrogen bonding in protein crystal structures HTML
  • Molecular Modeling of a b-hairpin peptide using NMR derived restrains HTML
  • DNA Shuffling of Cry proteins HTML
  • CobA, a red fluorescent reporter based bioassay of nisin HTML
Presentations
  • (Invited) Transcriptional regulatory networks, 31st annual conference of the Indian Immunological Society - 17th Dec 2004.
  • (Invited) Special lecture on systems biology, structure and dynamics of transcriptional regulatory networks, Alpha College of Arts and Sciences - 7th Dec 2004.
  • (Invited) Guest lecture on genomics, proteomics and systems biology, National programme in bioinformatics and information technology. TNVC - 26th Nov 2004.
  • (Invited) Structure, evolution and dynamics of the yeast transcriptional regulatory network, G.N. Ramachandran Hall, Madras University - 24th Nov 2004.
  • (Invited) Structure, evolution and dynamics of the yeast transcriptional regulatory network, PSI - University of Zurich, Switzerland - 20th Oct 2004.
  • (Invited) Structure and evolution of transcriptional regulatory networks in prokaryotes, MRC Laboratory of Molecular Biology, Cambridge - 15th Oct 2004.
  • (Invited) Non canonical interactions in protein structures, British Crystallographic Association spring meeting, Univ Manchester - 8th Apr 2004.
  • (Invited) General mechanisms for the evolution of gene regulatory networks, 2nd Trilateral Symposium in Structural Biology, Yokohama City Universit y, Japan - 24th Mar 2004.
  • (Invited) Structure, Evolution and Dynamics of the gene regulatory network in yeast, RIKEN Institute, Yokohama, Japan - 23rd Mar 2004.
  • (Invited) Evolution and dynamics of the gene regulatory network in yeast at Trinity College, University of Cambridge - 12th Feb 2004.
  • (Invited) Dynamic nature of the gene regulatory network in yeast at the European Bioinformatics Institute workshop - Dec 2003.
  • (Invited) General mechanisms for the evolution of gene regulatory networks at Oxford University - Oct 2003.
  • (Seminar series) Mechanisms for the evolution of regulatory networks at the EBI, Hinxton, Cambridge - Sep 2003.
  • (Seminar series) Protein families and the evolution of the gene regulatory network in E. coli at MRC-LMB - Mar 2003.
  • (Invited) Evolution of the gene regulatory network in E. coli at Darwin College, University of Cambridge - Jan 2003.
  • (Invited) Guest lecture on Biological Databases, Training programme on Bioinformatics & Information Technology at Bioinformatics Centre & ARIS Cell, Madras Veterinary College, India - Nov 2002.
  • (Invited) Evolution of transcription factors and the gene regulatory network in prokaryotes at the University of California, Berkeley - 20th Sep 20 02.
  • (Seminar series) Evolution of transcription factors and the gene regulatory network in E. coli at Stanford University - 19th Sep 2002.
  • (Seminar series) Protein Families and Regulatory Patterns in the Transcription Factors of E. coli at MRC-LMB - 1st May 2002
  • (Seminar series) Regulatory Patterns in the Transcription Factors of E. coli at NCBI, NIH, Bethesda, Maryland, USA - 23rd Apr 2002
  • (Seminar series) Protein Families in the Transcription Factors of E. coli at Cornell University, Ithaca, USA - 12th Apr 2002
  • (General) Unix for Beginners at MRC-Laboratory of Molecular Biology during Nov 2001 HTML handout
  • (General) Telnet, FTP for Beginners at MRC-Laboratory of Molecular Biology during Nov 2001 HTML handout
  • (Invited) Protein Sequence Analysis and Biological Databases - National workshop on Bioinformatics in TNVC, chennai, India during May 2001 HTML Presentation
  • (Invited) PERL for Biologists - Invited lecture for 3 days at DSQ Biotech, Bangalore, India during Apr 2001
  • (Invited) Introduction to Biological Databases - National workshop on Bioinformatics held in TNVC, Chennai, India during Dec 2000
  • (Invited) Co-ordinator and Instructor for the hands on session in the 3 day national workshop on Bioinformatics organized by the Bioinformatics Cen ter at CBT, Anna University, Chennai, India during Nov 24-26, 2000 PDF handout
Refereed manuscript(s) for
  • Nature Genetics
  • Trends in Genetics
  • Nucleic Acids Research
  • PEDs letters
  • FEBS letters
  • Biological and Medicinal Chemistry
  • Genome Biology
  • Bioinformatics
Professional Memberships
  • Student Member in International Society for Computational Biology, USA
  • Student Member in Society for General Microbiologist, UK
  • Student Member in Society of Biological Chemists, India
  • Student Member in Computer Society of India, India
  • Member in APBioNet, Singapore
Other Activities
Referees