Samir K Brahmachari

Samir K Brahmachari

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Samir K Brahmachari

Samir K Brahmachari

Publications by authors named "Samir K Brahmachari"

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Intronic miRNA mediated gene expression regulation controls protein crowding inside the cell.

Gene 2018 Dec 4;679:172-178. Epub 2018 Sep 4.

Cluster Innovation Centre, University of Delhi, Delhi 110007, India; CSIR-Institute of Genomics and Integrative Biology, Delhi 110007, India; Academy of Scientific and Innovative Research, CRRI, New Delhi 110020, India. Electronic address:

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https://linkinghub.elsevier.com/retrieve/pii/S03781119183094
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http://dx.doi.org/10.1016/j.gene.2018.08.082DOI Listing
December 2018

Paradigm for disease deconvolution in rare neurodegenerative disorders in Indian population: insights from studies in cerebellar ataxias.

J Genet 2018 Jul;97(3):589-609

CSIR Institute of Genomics and Integrative Biology (CSIR-IGIB), Mathura Road, New Delhi 110 025, India. E-mail:

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July 2018

iCHRCloud: Web & Mobile based Child Health Imprints for Smart Healthcare.

J Med Syst 2017 Nov 29;42(1):14. Epub 2017 Nov 29.

Academy of Scientific and Innovative Research, New Delhi, India.

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http://dx.doi.org/10.1007/s10916-017-0866-5DOI Listing
November 2017

Anti-HIV microRNA expression in a novel Indian cohort.

Sci Rep 2016 06 20;6:28279. Epub 2016 Jun 20.

CSIR-Institute of Genomics and Integrative Biology (CSIR-IGIB), Mathura Road, Delhi 110 020, India.

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http://dx.doi.org/10.1038/srep28279DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4913240PMC
June 2016

Metformin as a potential combination therapy with existing front-line antibiotics for Tuberculosis.

J Transl Med 2015 Mar 7;13:83. Epub 2015 Mar 7.

Academy of Scientific and Innovative Research, New Delhi, India.

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http://dx.doi.org/10.1186/s12967-015-0443-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4359515PMC
March 2015

Open source software and web services for designing therapeutic molecules.

Curr Top Med Chem 2013 ;13(10):1172-91

Bioinformatics Centre, Institute of Microbial Technology, Chandigarh, India.

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http://dx.doi.org/10.2174/1568026611313100005DOI Listing
February 2014

Social networks to biological networks: systems biology of Mycobacterium tuberculosis.

Mol Biosyst 2013 Jul 29;9(7):1584-93. Epub 2013 Apr 29.

CSIR-Open Source Drug Discovery Unit, New Delhi, India.

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http://dx.doi.org/10.1039/c3mb25546hDOI Listing
July 2013

A simple method for incorporating dynamic effects of intronic miRNA mediated regulation.

Mol Biosyst 2012 Aug 15;8(8):2145-52. Epub 2012 Jun 15.

Chemical Engineering and Process Development Division, CSIR-National Chemical Laboratory, Dr. Homi Bhabha Road, Pune, India.

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http://dx.doi.org/10.1039/c2mb25046bDOI Listing
August 2012

Mapping human genetic diversity in Asia.

Science 2009 Dec;326(5959):1541-5

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http://dx.doi.org/10.1126/science.1177074DOI Listing
December 2009

Posttranscriptional regulation of interleukin-10 expression by hsa-miR-106a.

Proc Natl Acad Sci U S A 2009 Apr 23;106(14):5761-6. Epub 2009 Mar 23.

Molecular Immunogenetics Laboratory, Institute of Genomics and Integrative Biology, Mall Road, Delhi 110007, India.

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http://dx.doi.org/10.1073/pnas.0808743106DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2659714PMC
April 2009

dbSMR: a novel resource of genome-wide SNPs affecting microRNA mediated regulation.

BMC Bioinformatics 2009 Apr 16;10:108. Epub 2009 Apr 16.

GN Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology (CSIR), Delhi, India.

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http://dx.doi.org/10.1186/1471-2105-10-108DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2676258PMC
April 2009

An Indian effort towards affordable drugs: "generic to designer drugs".

Biotechnol J 2009 Mar;4(3):348-60

Institute of Genomics and Integrative Biology, CSIR, Delhi, India.

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http://dx.doi.org/10.1002/biot.200900031DOI Listing
March 2009

Genetic susceptibility to schizophrenia: role of dopaminergic pathway gene polymorphisms.

Pharmacogenomics 2009 Feb;10(2):277-91

Functional Genomics Unit, Institute of Genomics and Integrative Biology (Council of Scientific and Industrial Research), Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.2217/14622416.10.2.277DOI Listing
February 2009

HGVbaseG2P: a central genetic association database.

Nucleic Acids Res 2009 Jan 23;37(Database issue):D797-802. Epub 2008 Oct 23.

Department of Genetics, University of Leicester, University Road, Leicester, LE1 7RH, UK.

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http://dx.doi.org/10.1093/nar/gkn748DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686551PMC
January 2009

From diversity to delivery: the case of the Indian Genome Variation initiative.

Nat Rev Genet 2008 10;9 Suppl 1:S9-14

McLaughlin-Rotman Centre for Global Health, Program on Life Sciences, Ethics and Policy, University Health Network and University of Toronto, MaRS Centre, South Tower, Suite 406, 101 College Street, Toronto, Ontario M5G 1L7, Canada.

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http://dx.doi.org/10.1038/nrg2440DOI Listing
October 2008

Predicting protein homocysteinylation targets based on dihedral strain energy and pKa of cysteines.

Proteins 2008 May;71(3):1475-83

Proteomics and Structural Biology Unit, Institute of Genomics and Integrative Biology, Delhi 110007, India.

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http://dx.doi.org/10.1002/prot.21846DOI Listing
May 2008

Human Proteinpedia enables sharing of human protein data.

Authors:
Suresh Mathivanan Mukhtar Ahmed Natalie G Ahn Hainard Alexandre Ramars Amanchy Philip C Andrews Joel S Bader Brian M Balgley Marcus Bantscheff Keiryn L Bennett Erik Björling Blagoy Blagoev Ron Bose Samir K Brahmachari Alma S Burlingame Xosé R Bustelo Gerard Cagney Greg T Cantin Helene L Cardasis Julio E Celis Raghothama Chaerkady Feixia Chu Philip A Cole Catherine E Costello Robert J Cotter David Crockett James P DeLany Angelo M De Marzo Leroi V DeSouza Eric W Deutsch Eric Dransfield Gerard Drewes Arnaud Droit Michael J Dunn Kojo Elenitoba-Johnson Rob M Ewing Jennifer Van Eyk Vitor Faca Jayson Falkner Xiangming Fang Catherine Fenselau Daniel Figeys Pierre Gagné Cecilia Gelfi Kris Gevaert Jeffrey M Gimble Florian Gnad Renu Goel Pavel Gromov Samir M Hanash William S Hancock H C Harsha Gerald Hart Faith Hays Fuchu He Prashantha Hebbar Kenny Helsens Heiko Hermeking Winston Hide Karin Hjernø Denis F Hochstrasser Oliver Hofmann David M Horn Ralph H Hruban Nieves Ibarrola Peter James Ole N Jensen Pia Hønnerup Jensen Peter Jung Kumaran Kandasamy Indu Kheterpal Reiko F Kikuno Ulrike Korf Roman Körner Bernhard Kuster Min-Seok Kwon Hyoung-Joo Lee Young-Jin Lee Michael Lefevre Minna Lehvaslaiho Pierre Lescuyer Fredrik Levander Megan S Lim Christian Löbke Joseph A Loo Matthias Mann Lennart Martens Juan Martinez-Heredia Mark McComb James McRedmond Alexander Mehrle Rajasree Menon Christine A Miller Harald Mischak S Sujatha Mohan Riaz Mohmood Henrik Molina Michael F Moran James D Morgan Robert Moritz Martine Morzel David C Muddiman Anuradha Nalli J Daniel Navarro Thomas A Neubert Osamu Ohara Rafael Oliva Gilbert S Omenn Masaaki Oyama Young-Ki Paik Kyla Pennington Rainer Pepperkok Balamurugan Periaswamy Emanuel F Petricoin Guy G Poirier T S Keshava Prasad Samuel O Purvine B Abdul Rahiman Prasanna Ramachandran Y L Ramachandra Robert H Rice Jens Rick Ragna H Ronnholm Johanna Salonen Jean-Charles Sanchez Thierry Sayd Beerelli Seshi Kripa Shankari Shi Jun Sheng Vivekananda Shetty K Shivakumar Richard J Simpson Ravi Sirdeshmukh K W Michael Siu Jeffrey C Smith Richard D Smith David J States Sumio Sugano Matthew Sullivan Giulio Superti-Furga Maarit Takatalo Visith Thongboonkerd Jonathan C Trinidad Mathias Uhlen Joël Vandekerckhove Julian Vasilescu Timothy D Veenstra José-Manuel Vidal-Taboada Mauno Vihinen Robin Wait Xiaoyue Wang Stefan Wiemann Billy Wu Tao Xu John R Yates Jun Zhong Ming Zhou Yunping Zhu Petra Zurbig Akhilesh Pandey

Nat Biotechnol 2008 Feb;26(2):164-7

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http://dx.doi.org/10.1038/nbt0208-164DOI Listing
February 2008

Host-virus genome interactions: macro roles for microRNAs.

Cell Microbiol 2007 Dec 18;9(12):2784-94. Epub 2007 Oct 18.

GN Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, CSIR, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1111/j.1462-5822.2007.01050.xDOI Listing
December 2007

Structural assessment of glycyl mutations in invariantly conserved motifs.

Proteins 2007 Nov;69(3):617-32

G. N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi 110007, India.

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http://dx.doi.org/10.1002/prot.21488DOI Listing
November 2007

Abundance of dinucleotide repeats and gene expression are inversely correlated: a role for gene function in addition to intron length.

Physiol Genomics 2007 Sep 5;31(1):96-103. Epub 2007 Jun 5.

G. N. Ramachandran Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi, India.

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http://dx.doi.org/10.1152/physiolgenomics.00183.2006DOI Listing
September 2007

microRNA: an emerging therapeutic.

ChemMedChem 2007 Jun;2(6):789-92

GN Ramachandran Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, (CSIR), Mall Road, Delhi, India.

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http://doi.wiley.com/10.1002/cmdc.200600278
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http://dx.doi.org/10.1002/cmdc.200600278DOI Listing
June 2007

Boolean network analysis of a neurotransmitter signaling pathway.

J Theor Biol 2007 Feb 26;244(3):463-9. Epub 2006 Aug 26.

Institute of Genomics and Integrative Biology, CSIR, Delhi 110007, India.

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http://linkinghub.elsevier.com/retrieve/pii/S002251930600367
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http://dx.doi.org/10.1016/j.jtbi.2006.08.014DOI Listing
February 2007

Host-virus interaction: a new role for microRNAs.

Retrovirology 2006 Oct 11;3:68. Epub 2006 Oct 11.

GN Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, CSIR, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1186/1742-4690-3-68DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1626483PMC
October 2006

Expoldb: expression linked polymorphism database with inbuilt tools for analysis of expression and simple repeats.

BMC Genomics 2006 Oct 13;7:258. Epub 2006 Oct 13.

G.N. Ramachandran Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1186/1471-2164-7-258DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1618849PMC
October 2006

SYNGR1 is associated with schizophrenia and bipolar disorder in southern India.

J Hum Genet 2005 8;50(12):635-40. Epub 2005 Oct 8.

Functional Genomics Unit, Institute of Genomics and Integrative Biology (CSIR), Delhi University Campus, Mall Road, Delhi, 110007, India.

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http://link.springer.com/content/pdf/10.1007/s10038-005-0307
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http://www.nature.com/doifinder/10.1007/s10038-005-0307-z
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http://dx.doi.org/10.1007/s10038-005-0307-zDOI Listing
February 2006

Association of DRD2 gene variant with schizophrenia.

Neurosci Lett 2006 Jan 23;392(1-2):68-71. Epub 2005 Sep 23.

GenoMed Lab, Gene Quest Laboratory, Nicholas Piramal India Ltd at Institute of Genomics and Integrative Biology, CSIR, Mall Road, Delhi 110007, India.

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http://dx.doi.org/10.1016/j.neulet.2005.08.059DOI Listing
January 2006

Pharmacogenomics: a path to predictive medicine for schizophrenia.

Pharmacogenomics 2006 Jan;7(1):31-47

Institute of Genomics and Integrative Biology (CSIR), Delhi University Campus, Delhi 110007, India.

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http://dx.doi.org/10.2217/14622416.7.1.31DOI Listing
January 2006

Targets for human encoded microRNAs in HIV genes.

Biochem Biophys Res Commun 2005 Dec 7;337(4):1214-8. Epub 2005 Oct 7.

G.N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1016/j.bbrc.2005.09.183DOI Listing
December 2005

MLC1 gene is associated with schizophrenia and bipolar disorder in Southern India.

Biol Psychiatry 2005 Jul;58(1):16-22

Functional Genomics Unit, Institute of Genomics and Integrative Biology (CSIR), Delhi, India.

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http://dx.doi.org/10.1016/j.biopsych.2005.03.027DOI Listing
July 2005

ALU-ring elements in the primate genomes.

Genetica 2005 Jul;124(2-3):273-89

Functional Genomics Unit, Institute of Genomics and Integrative Biology, Mall Road, Delhi, India.

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July 2005

Clusters of proteins in archaeal and bacterial proteomes using compositional analysis.

In Silico Biol 2004 ;4(4):573-91

G.N. Ramachandran Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, Mall Road, Delhi 110 007, India.

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June 2005

(TG/CA)n repeats in human gene families: abundance and selective patterns of distribution according to function and gene length.

BMC Genomics 2005 Jun 3;6:83. Epub 2005 Jun 3.

G.N. Ramachandran Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1186/1471-2164-6-83DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1177943PMC
June 2005

Assessing natural variations in gene expression in humans by comparing with monozygotic twins using microarrays.

Physiol Genomics 2005 Mar 11;21(1):117-23. Epub 2005 Jan 11.

Functional Genomics Unit, G. N. Ramachandran Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, Delhi, India.

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http://dx.doi.org/10.1152/physiolgenomics.00228.2003DOI Listing
March 2005

Conformational analysis of invariant peptide sequences in bacterial genomes.

J Mol Biol 2005 Feb 16;345(5):937-55. Epub 2004 Dec 16.

G.N.R. Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, CSIR, Mall Road, Delhi 110007, India.

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http://dx.doi.org/10.1016/j.jmb.2004.11.008DOI Listing
February 2005

CoPS: Comprehensive Peptide Signature database.

Bioinformatics 2004 Nov 27;20(16):2886-8. Epub 2004 May 27.

G.N.R. Knowledge Center for Genome Informatics, Institute of Genomics and Integrative Biology, (Formerly Centre for Biochemical Technology), CSIR, Delhi University Campus, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1093/bioinformatics/bth325DOI Listing
November 2004

Evolution and distribution of RNA polymerase II regulatory sites from RNA polymerase III dependant mobile Alu elements.

BMC Evol Biol 2004 Oct 4;4:37. Epub 2004 Oct 4.

Functional Genomics Unit, Institute of Genomics and Integrative Biology, CSIR, Mall Road, Delhi 110007, India.

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http://bmcevolbiol.biomedcentral.com/articles/10.1186/1471-2
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http://dx.doi.org/10.1186/1471-2148-4-37DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC524483PMC
October 2004

Recognition and analysis of protein-coding genes in severe acute respiratory syndrome associated coronavirus.

Bioinformatics 2004 May 5;20(7):1074-80. Epub 2004 Feb 5.

Institute of Genomics and Integrative Biology, CSIR, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1093/bioinformatics/bth041DOI Listing
May 2004

Alu repeat analysis in the complete human genome: trends and variations with respect to genomic composition.

Bioinformatics 2004 Apr 29;20(6):813-7. Epub 2004 Jan 29.

Functional Genomics Unit, Institute of Genomics and Integrative Biology (IGIB), CSIR, Mall Road, Delhi 110007, India.

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http://dx.doi.org/10.1093/bioinformatics/bth005DOI Listing
April 2004

A nonsense mutation in the synaptogyrin 1 gene in a family with schizophrenia.

Biol Psychiatry 2004 Jan;55(2):196-9

Functional Genomics Unit, Institute of Genomics and Integrative Biology, Council of Scientific and Industrial Research, Delhi University Campus, Delhi, India.

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http://dx.doi.org/10.1016/j.biopsych.2003.10.012DOI Listing
January 2004

(TG:CA)(n) repeats in human housekeeping genes.

J Biomol Struct Dyn 2003 Oct;21(2):303-10

G N Ramachandran Knowledge Centre for Genome Informatics, Institute of Genomics and Integrative Biology, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1080/07391102.2003.10506926DOI Listing
October 2003

Nonrandom distribution of alu elements in genes of various functional categories: insight from analysis of human chromosomes 21 and 22.

Mol Biol Evol 2003 Sep 27;20(9):1420-4. Epub 2003 Jun 27.

Functional Genomics Unit, Institute of Genomics and Integrative Biology (formerly Centre for Biochemical Technology), CSIR, Delhi, India.

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http://dx.doi.org/10.1093/molbev/msg153DOI Listing
September 2003

Role of histidine interruption in mitigating the pathological effects of long polyglutamine stretches in SCA1: A molecular approach.

Protein Sci 2003 May;12(5):953-62

Functional Genomics Unit, Institute of Genomics & Integrative Biology (formerly Centre for Biochemical Technology), CSIR, Delhi-110007, India.

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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2323866PMC
http://dx.doi.org/10.1110/ps.0224403DOI Listing
May 2003

A novel complexity measure for comparative analysis of protein sequences from complete genomes.

J Biomol Struct Dyn 2003 Apr;20(5):657-68

Institute of Genomics and Integrative Biology, Centre for Biochemical Technology, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1080/07391102.2003.10506882DOI Listing
April 2003

Whole genome expression profiles of yeast RNA polymerase II core subunit, Rpb4, in stress and nonstress conditions.

J Biol Chem 2003 Jan 11;278(5):3339-46. Epub 2002 Nov 11.

Department of Microbiology and Cell Biology, Indian Institute of Science, Bangalore, 560 012, India.

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http://dx.doi.org/10.1074/jbc.M112180200DOI Listing
January 2003

Variations in angiotensin-converting enzyme gene insertion/deletion polymorphism in Indian populations of different ethnic origins.

J Biosci 2002 Feb;27(1 Suppl 1):67-70

Functional Genomics Unit, Centre for Biochemical Technology, Mall Road, Delhi 110 007, India.

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http://dx.doi.org/10.1007/bf02703684DOI Listing
February 2002