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Items: 20

1.

Proteomic profiling of human intraschisis cavity fluid.

Sudha D, Kohansal-Nodehi M, Kovuri P, Manda SS, Neriyanuri S, Gopal L, Bhende P, Chidambaram S, Arunachalam JP.

Clin Proteomics. 2017 Apr 24;14:13. doi: 10.1186/s12014-017-9148-y. eCollection 2017.

2.

Data-Driven Discovery of Extravasation Pathway in Circulating Tumor Cells.

Yadavalli S, Jayaram S, Manda SS, Madugundu AK, Nayakanti DS, Tan TZ, Bhat R, Rangarajan A, Chatterjee A, Gowda H, Thiery JP, Kumar P.

Sci Rep. 2017 Mar 6;7:43710. doi: 10.1038/srep43710.

3.

Integrating transcriptomic and proteomic data for accurate assembly and annotation of genomes.

Prasad TS, Mohanty AK, Kumar M, Sreenivasamurthy SK, Dey G, Nirujogi RS, Pinto SM, Madugundu AK, Patil AH, Advani J, Manda SS, Gupta MK, Dwivedi SB, Kelkar DS, Hall B, Jiang X, Peery A, Rajagopalan P, Yelamanchi SD, Solanki HS, Raja R, Sathe GJ, Chavan S, Verma R, Patel KM, Jain AP, Syed N, Datta KK, Khan AA, Dammalli M, Jayaram S, Radhakrishnan A, Mitchell CJ, Na CH, Kumar N, Sinnis P, Sharakhov IV, Wang C, Gowda H, Tu Z, Kumar A, Pandey A.

Genome Res. 2017 Jan;27(1):133-144. doi: 10.1101/gr.201368.115. Epub 2016 Nov 15.

4.

Long non-coding RNA expression in primary human monocytes.

Mirsafian H, Manda SS, Mitchell CJ, Sreenivasamurthy S, Ripen AM, Mohamad SB, Merican AF, Pandey A.

Genomics. 2016 Jul;108(1):37-45. doi: 10.1016/j.ygeno.2016.01.002. Epub 2016 Jan 8.

5.

Phosphoproteomic Profiling Reveals Epstein-Barr Virus Protein Kinase Integration of DNA Damage Response and Mitotic Signaling.

Li R, Liao G, Nirujogi RS, Pinto SM, Shaw PG, Huang TC, Wan J, Qian J, Gowda H, Wu X, Lv DW, Zhang K, Manda SS, Pandey A, Hayward SD.

PLoS Pathog. 2015 Dec 29;11(12):e1005346. doi: 10.1371/journal.ppat.1005346. eCollection 2015 Dec.

6.

A multi-omic analysis of human naïve CD4+ T cells.

Mitchell CJ, Getnet D, Kim MS, Manda SS, Kumar P, Huang TC, Pinto SM, Nirujogi RS, Iwasaki M, Shaw PG, Wu X, Zhong J, Chaerkady R, Marimuthu A, Muthusamy B, Sahasrabuddhe NA, Raju R, Bowman C, Danilova L, Cutler J, Kelkar DS, Drake CG, Prasad TS, Marchionni L, Murakami PN, Scott AF, Shi L, Thierry-Mieg J, Thierry-Mieg D, Irizarry R, Cope L, Ishihama Y, Wang C, Gowda H, Pandey A.

BMC Syst Biol. 2015 Nov 6;9:75. doi: 10.1186/s12918-015-0225-4.

7.

Tissue matrix arrays for high-throughput screening and systems analysis of cell function.

Beachley VZ, Wolf MT, Sadtler K, Manda SS, Jacobs H, Blatchley MR, Bader JS, Pandey A, Pardoll D, Elisseeff JH.

Nat Methods. 2015 Dec;12(12):1197-204. doi: 10.1038/nmeth.3619. Epub 2015 Oct 19.

8.

Phosphoproteomic Analysis Identifies Focal Adhesion Kinase 2 (FAK2) as a Potential Therapeutic Target for Tamoxifen Resistance in Breast Cancer.

Wu X, Zahari MS, Renuse S, Nirujogi RS, Kim MS, Manda SS, Stearns V, Gabrielson E, Sukumar S, Pandey A.

Mol Cell Proteomics. 2015 Nov;14(11):2887-900. doi: 10.1074/mcp.M115.050484. Epub 2015 Sep 1.

9.

Widespread somatic L1 retrotransposition occurs early during gastrointestinal cancer evolution.

Ewing AD, Gacita A, Wood LD, Ma F, Xing D, Kim MS, Manda SS, Abril G, Pereira G, Makohon-Moore A, Looijenga LH, Gillis AJ, Hruban RH, Anders RA, Romans KE, Pandey A, Iacobuzio-Donahue CA, Vogelstein B, Kinzler KW, Kazazian HH Jr, Solyom S.

Genome Res. 2015 Oct;25(10):1536-45. doi: 10.1101/gr.196238.115. Epub 2015 Aug 10.

10.

Identification of differentially expressed serum proteins in gastric adenocarcinoma.

Subbannayya Y, Mir SA, Renuse S, Manda SS, Pinto SM, Puttamallesh VN, Solanki HS, Manju HC, Syed N, Sharma R, Christopher R, Vijayakumar M, Veerendra Kumar KV, Keshava Prasad TS, Ramaswamy G, Kumar RV, Chatterjee A, Pandey A, Gowda H.

J Proteomics. 2015 Sep 8;127(Pt A):80-8. doi: 10.1016/j.jprot.2015.04.021. Epub 2015 May 5.

11.

Proteomics of human aqueous humor.

Murthy KR, Rajagopalan P, Pinto SM, Advani J, Murthy PR, Goel R, Subbannayya Y, Balakrishnan L, Dash M, Anil AK, Manda SS, Nirujogi RS, Kelkar DS, Sathe GJ, Dey G, Chatterjee A, Gowda H, Chakravarti S, Shankar S, Sahasrabuddhe NA, Nair B, Somani BL, Prasad TS, Pandey A.

OMICS. 2015 May;19(5):283-93. doi: 10.1089/omi.2015.0029.

PMID:
25933257
12.

Calcium calmodulin dependent kinase kinase 2 - a novel therapeutic target for gastric adenocarcinoma.

Subbannayya Y, Syed N, Barbhuiya MA, Raja R, Marimuthu A, Sahasrabuddhe N, Pinto SM, Manda SS, Renuse S, Manju HC, Zameer MA, Sharma J, Brait M, Srikumar K, Roa JC, Vijaya Kumar M, Kumar KV, Prasad TS, Ramaswamy G, Kumar RV, Pandey A, Gowda H, Chatterjee A.

Cancer Biol Ther. 2015;16(2):336-45. doi: 10.4161/15384047.2014.972264.

13.

Phosphoproteomic analysis reveals compensatory effects in the piriform cortex of VX nerve agent exposed rats.

Nirujogi RS, Wright JD Jr, Manda SS, Zhong J, Na CH, Meyerhoff J, Benton B, Jabbour R, Willis K, Kim MS, Pandey A, Sekowski JW.

Proteomics. 2015 Jan;15(2-3):487-99. doi: 10.1002/pmic.201400371.

PMID:
25403869
14.

Quantitative phosphoproteomic analysis of IL-33-mediated signaling.

Pinto SM, Nirujogi RS, Rojas PL, Patil AH, Manda SS, Subbannayya Y, Roa JC, Chatterjee A, Prasad TS, Pandey A.

Proteomics. 2015 Jan;15(2-3):532-44. doi: 10.1002/pmic.201400303.

15.

Proteomic analysis of human vitreous humor.

Murthy KR, Goel R, Subbannayya Y, Jacob HK, Murthy PR, Manda SS, Patil AH, Sharma R, Sahasrabuddhe NA, Parashar A, Nair BG, Krishna V, Prasad TK, Gowda H, Pandey A.

Clin Proteomics. 2014 Jul 14;11(1):29. doi: 10.1186/1559-0275-11-29. eCollection 2014.

16.

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.

Mol Cell Proteomics. 2014 Nov;13(11):3184-98. doi: 10.1074/mcp.M114.038299. Epub 2014 Jul 24.

17.

Identification and characterization of proteins encoded by chromosome 12 as part of chromosome-centric human proteome project.

Manda SS, Nirujogi RS, Pinto SM, Kim MS, Datta KK, Sirdeshmukh R, Prasad TS, Thongboonkerd V, Pandey A, Gowda H.

J Proteome Res. 2014 Jul 3;13(7):3166-77. doi: 10.1021/pr401123v. Epub 2014 Jun 24.

PMID:
24960282
18.

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.

Nature. 2014 May 29;509(7502):575-81. doi: 10.1038/nature13302.

19.

Functional annotation of proteome encoded by human chromosome 22.

Pinto SM, Manda SS, Kim MS, Taylor K, Selvan LD, Balakrishnan L, Subbannayya T, Yan F, Prasad TS, Gowda H, Lee C, Hancock WS, Pandey A.

J Proteome Res. 2014 Jun 6;13(6):2749-60. doi: 10.1021/pr401169d. Epub 2014 Apr 29.

20.

Proteomic analysis of human osteoarthritis synovial fluid.

Balakrishnan L, Nirujogi RS, Ahmad S, Bhattacharjee M, Manda SS, Renuse S, Kelkar DS, Subbannayya Y, Raju R, Goel R, Thomas JK, Kaur N, Dhillon M, Tankala SG, Jois R, Vasdev V, Ramachandra Y, Sahasrabuddhe NA, Prasad TsK, Mohan S, Gowda H, Shankar S, Pandey A.

Clin Proteomics. 2014 Feb 17;11(1):6. doi: 10.1186/1559-0275-11-6.

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