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A draft map of the human proteome.
Kim MS, Pinto SM, Getnet D, Nirujogi RS, Manda SS, Chaerkady R, Madugundu AK, Kelkar DS, Isserlin R, Jain S, Thomas JK, Muthusamy B, Leal-Rojas P, Kumar P, Sahasrabuddhe NA, Balakrishnan L, Advani J, George B, Renuse S, Selvan LD, Patil AH, Nanjappa V, Radhakrishnan A, Prasad S, Subbannayya T, Raju R, Kumar M, Sreenivasamurthy SK, Marimuthu A, Sathe GJ, Chavan S, Datta KK, Subbannayya Y, Sahu A, Yelamanchi SD, Jayaram S, Rajagopalan P, Sharma J, Murthy KR, Syed N, Goel R, Khan AA, Ahmad S, Dey G, Mudgal K, Chatterjee A, Huang TC, Zhong J, Wu X, Shaw PG, Freed D, Zahari MS, Mukherjee KK, Shankar S, Mahadevan A, Lam H, Mitchell CJ, Shankar SK, Satishchandra P, Schroeder JT, Sirdeshmukh R, Maitra A, Leach SD, Drake CG, Halushka MK, Prasad TS, Hruban RH, Kerr CL, Bader GD, Iacobuzio-Donahue CA, Gowda H, Pandey A. Kim MS, et al. Nature. 2014 May 29;509(7502):575-81. doi: 10.1038/nature13302. Nature. 2014. PMID: 24870542 Free PMC article.
Lessons from the Hamster: Cricetulus griseus Tissue and CHO Cell Line Proteome Comparison.
Heffner KM, Hizal DB, Yerganian GS, Kumar A, Can Ö, O'Meally R, Cole R, Chaerkady R, Wu H, Bowen MA, Betenbaugh MJ. Heffner KM, et al. Among authors: Chaerkady R. J Proteome Res. 2017 Oct 6;16(10):3672-3687. doi: 10.1021/acs.jproteome.7b00382. Epub 2017 Sep 14. J Proteome Res. 2017. PMID: 28876938
Proteomic Signature of Endothelial Dysfunction Identified in the Serum of Acute Ischemic Stroke Patients by the iTRAQ-Based LC-MS Approach.
Sharma R, Gowda H, Chavan S, Advani J, Kelkar D, Kumar GS, Bhattacharjee M, Chaerkady R, Prasad TS, Pandey A, Nagaraja D, Christopher R. Sharma R, et al. J Proteome Res. 2015 Jun 5;14(6):2466-79. doi: 10.1021/pr501324n. Epub 2015 Apr 24. J Proteome Res. 2015. PMID: 25807139
Proteogenomic analysis of Candida glabrata using high resolution mass spectrometry.
Prasad TS, Harsha HC, Keerthikumar S, Sekhar NR, Selvan LD, Kumar P, Pinto SM, Muthusamy B, Subbannayya Y, Renuse S, Chaerkady R, Mathur PP, Ravikumar R, Pandey A. Prasad TS, et al. J Proteome Res. 2012 Jan 1;11(1):247-60. doi: 10.1021/pr200827k. Epub 2011 Dec 13. J Proteome Res. 2012. PMID: 22129275
Human Proteinpedia enables sharing of human protein data.
Mathivanan S, Ahmed M, Ahn NG, Alexandre H, Amanchy R, Andrews PC, Bader JS, Balgley BM, Bantscheff M, Bennett KL, Björling E, Blagoev B, Bose R, Brahmachari SK, Burlingame AS, Bustelo XR, Cagney G, Cantin GT, Cardasis HL, Celis JE, Chaerkady R, Chu F, Cole PA, Costello CE, Cotter RJ, Crockett D, DeLany JP, De Marzo AM, DeSouza LV, Deutsch EW, Dransfield E, Drewes G, Droit A, Dunn MJ, Elenitoba-Johnson K, Ewing RM, Van Eyk J, Faca V, Falkner J, Fang X, Fenselau C, Figeys D, Gagné P, Gelfi C, Gevaert K, Gimble JM, Gnad F, Goel R, Gromov P, Hanash SM, Hancock WS, Harsha HC, Hart G, Hays F, He F, Hebbar P, Helsens K, Hermeking H, Hide W, Hjernø K, Hochstrasser DF, Hofmann O, Horn DM, Hruban RH, Ibarrola N, James P, Jensen ON, Jensen PH, Jung P, Kandasamy K, Kheterpal I, Kikuno RF, Korf U, Körner R, Kuster B, Kwon MS, Lee HJ, Lee YJ, Lefevre M, Lehvaslaiho M, Lescuyer P, Levander F, Lim MS, Löbke C, Loo JA, Mann M, Martens L, Martinez-Heredia J, McComb M, McRedmond J, Mehrle A, Menon R, Miller CA, Mischak H, Mohan SS, Mohmood R, Molina H, Moran MF, Morgan JD, Moritz R, Morzel M, Muddiman DC, Nalli A, Navarro JD, Neubert TA, Ohara O, Oliva R, Omenn GS, Oyama M, Paik YK, Pennington K, Pepperkok R, Periaswamy B, Petricoin EF, Poirier GG, Prasad TS, Purvine SO, Rahiman BA, Ramachandran P, Ramachandra YL, Rice RH, Rick J, Ronnholm RH, Salonen J, Sanchez JC, Sayd T, Seshi B, Shankari K, Sheng SJ, Shetty V, Shivakumar K, Simpson RJ, Sirdeshmukh R, Siu KW, Smith JC, Smith RD, States DJ, Sugano S, Sullivan M, Superti-Furga G, Takatalo M, Thongboonkerd V, Trinidad JC, Uhlen M, Vandekerckhove J, Vasilescu J, Veenstra TD, Vidal-Taboada JM, Vihinen M, Wait R, Wang X, Wiemann S, Wu B, Xu T, Yates JR, Zhong J, Zhou M, Zhu Y, Zurbig P, Pandey A. Mathivanan S, et al. Nat Biotechnol. 2008 Feb;26(2):164-7. doi: 10.1038/nbt0208-164. Nat Biotechnol. 2008. PMID: 18259167 No abstract available.
Human Proteinpedia: a unified discovery resource for proteomics research.
Kandasamy K, Keerthikumar S, Goel R, Mathivanan S, Patankar N, Shafreen B, Renuse S, Pawar H, Ramachandra YL, Acharya PK, Ranganathan P, Chaerkady R, Keshava Prasad TS, Pandey A. Kandasamy K, et al. Nucleic Acids Res. 2009 Jan;37(Database issue):D773-81. doi: 10.1093/nar/gkn701. Epub 2008 Oct 23. Nucleic Acids Res. 2009. PMID: 18948298 Free PMC article.
Annotation of the zebrafish genome through an integrated transcriptomic and proteomic analysis.
Kelkar DS, Provost E, Chaerkady R, Muthusamy B, Manda SS, Subbannayya T, Selvan LD, Wang CH, Datta KK, Woo S, Dwivedi SB, Renuse S, Getnet D, Huang TC, Kim MS, Pinto SM, Mitchell CJ, Madugundu AK, Kumar P, Sharma J, Advani J, Dey G, Balakrishnan L, Syed N, Nanjappa V, Subbannayya Y, Goel R, Prasad TS, Bafna V, Sirdeshmukh R, Gowda H, Wang C, Leach SD, Pandey A. Kelkar DS, et al. Mol Cell Proteomics. 2014 Nov;13(11):3184-98. doi: 10.1074/mcp.M114.038299. Epub 2014 Jul 24. Mol Cell Proteomics. 2014. PMID: 25060758 Free PMC article.
Regulation of PPAR-alpha pathway by Dicer revealed through proteomic analysis.
Sahasrabuddhe NA, Huang TC, Ahmad S, Kim MS, Yang Y, Ghosh B, Leach SD, Gowda H, Somani BL, Chaerkady R, Pandey A. Sahasrabuddhe NA, et al. J Proteomics. 2014 Aug 28;108:306-15. doi: 10.1016/j.jprot.2014.04.027. Epub 2014 Apr 24. J Proteomics. 2014. PMID: 24769236
Identification of prosaposin and transgelin as potential biomarkers for gallbladder cancer using quantitative proteomics.
Sahasrabuddhe NA, Barbhuiya MA, Bhunia S, Subbannayya T, Gowda H, Advani J, Shrivastav BR, Navani S, Leal P, Roa JC, Chaerkady R, Gupta S, Chatterjee A, Pandey A, Tiwari PK. Sahasrabuddhe NA, et al. Biochem Biophys Res Commun. 2014 Apr 18;446(4):863-9. doi: 10.1016/j.bbrc.2014.03.017. Epub 2014 Mar 20. Biochem Biophys Res Commun. 2014. PMID: 24657443 Free PMC article.
SILAC-based quantitative proteomic analysis of gastric cancer secretome.
Marimuthu A, Subbannayya Y, Sahasrabuddhe NA, Balakrishnan L, Syed N, Sekhar NR, Katte TV, Pinto SM, Srikanth SM, Kumar P, Pawar H, Kashyap MK, Maharudraiah J, Ashktorab H, Smoot DT, Ramaswamy G, Kumar RV, Cheng Y, Meltzer SJ, Roa JC, Chaerkady R, Prasad TS, Harsha HC, Chatterjee A, Pandey A. Marimuthu A, et al. Proteomics Clin Appl. 2013 Jun;7(5-6):355-66. doi: 10.1002/prca.201200069. Epub 2013 May 21. Proteomics Clin Appl. 2013. PMID: 23161554 Free PMC article.
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