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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.
A comprehensive map of the human urinary proteome.
Marimuthu A, O'Meally RN, Chaerkady R, Subbannayya Y, Nanjappa V, Kumar P, Kelkar DS, Pinto SM, Sharma R, Renuse S, Goel R, Christopher R, Delanghe B, Cole RN, Harsha HC, Pandey A. Marimuthu A, et al. J Proteome Res. 2011 Jun 3;10(6):2734-43. doi: 10.1021/pr2003038. Epub 2011 May 9. J Proteome Res. 2011. PMID: 21500864 Free PMC article.
Proteome profiling of wild type and lumican-deficient mouse corneas.
Shao H, Chaerkady R, Chen S, Pinto SM, Sharma R, Delanghe B, Birk DE, Pandey A, Chakravarti S. Shao H, et al. J Proteomics. 2011 Sep 6;74(10):1895-905. doi: 10.1016/j.jprot.2011.04.032. Epub 2011 May 17. J Proteomics. 2011. PMID: 21616181 Free PMC article.
A proteogenomic analysis of Anopheles gambiae using high-resolution Fourier transform mass spectrometry.
Chaerkady R, Kelkar DS, Muthusamy B, Kandasamy K, Dwivedi SB, Sahasrabuddhe NA, Kim MS, Renuse S, Pinto SM, Sharma R, Pawar H, Sekhar NR, Mohanty AK, Getnet D, Yang Y, Zhong J, Dash AP, MacCallum RM, Delanghe B, Mlambo G, Kumar A, Keshava Prasad TS, Okulate M, Kumar N, Pandey A. Chaerkady R, et al. Genome Res. 2011 Nov;21(11):1872-81. doi: 10.1101/gr.127951.111. Epub 2011 Jul 27. Genome Res. 2011. PMID: 21795387 Free PMC article.
NetSlim: high-confidence curated signaling maps.
Raju R, Nanjappa V, Balakrishnan L, Radhakrishnan A, Thomas JK, Sharma J, Tian M, Palapetta SM, Subbannayya T, Sekhar NR, Muthusamy B, Goel R, Subbannayya Y, Telikicherla D, Bhattacharjee M, Pinto SM, Syed N, Srikanth MS, Sathe GJ, Ahmad S, Chavan SN, Kumar GS, Marimuthu A, Prasad TS, Harsha HC, Rahiman BA, Ohara O, Bader GD, Sujatha Mohan S, Schiemann WP, Pandey A. Raju R, et al. Database (Oxford). 2011 Sep 29;2011:bar032. doi: 10.1093/database/bar032. Print 2011. Database (Oxford). 2011. PMID: 21959865 Free PMC article.
Comprehensive proteomic analysis of human bile.
Barbhuiya MA, Sahasrabuddhe NA, Pinto SM, Muthusamy B, Singh TD, Nanjappa V, Keerthikumar S, Delanghe B, Harsha HC, Chaerkady R, Jalaj V, Gupta S, Shrivastav BR, Tiwari PK, Pandey A. Barbhuiya MA, et al. Proteomics. 2011 Dec;11(23):4443-53. doi: 10.1002/pmic.201100197. Epub 2011 Nov 4. Proteomics. 2011. PMID: 22114102
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
Proteomics for understanding miRNA biology.
Huang TC, Pinto SM, Pandey A. Huang TC, et al. Proteomics. 2013 Feb;13(3-4):558-67. doi: 10.1002/pmic.201200339. Epub 2012 Dec 27. Proteomics. 2013. PMID: 23125164 Free PMC article. Review.
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.
Proteomic strategies to characterize signaling pathways.
Harsha HC, Pinto SM, Pandey A. Harsha HC, et al. Methods Mol Biol. 2013;1007:359-77. doi: 10.1007/978-1-62703-392-3_16. Methods Mol Biol. 2013. PMID: 23666735
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