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Items: 28

1.

A Next-Generation Sequencing-Based Molecular Approach to Characterize a Tick Vector in Lyme Disease.

Madugundu AK, Muthusamy B, Sreenivasamurthy SK, Bhavani C, Sharma J, Kumar B, Murthy KR, Ravikumar R, Pandey A.

OMICS. 2018 Aug;22(8):565-574. doi: 10.1089/omi.2018.0089.

PMID:
30106352
2.

Phosphoproteomics of Retinoblastoma: A Pilot Study Identifies Aberrant Kinases.

Selvan LDN, Danda R, Madugundu AK, Puttamallesh VN, Sathe GJ, Krishnan UM, Khetan V, Rishi P, Prasad TSK, Pandey A, Krishnakumar S, Gowda H, Elchuri SV.

Molecules. 2018 Jun 15;23(6). pii: E1454. doi: 10.3390/molecules23061454.

3.

Membrane Proteome of Invasive Retinoblastoma: Differential Proteins and Biomarkers.

Danda R, Ganapathy K, Sathe G, Madugundu AK, Krishnan UM, Khetan V, Rishi P, Gowda H, Pandey A, Subramanian K, Prasad TSK, Elchuri SV.

Proteomics Clin Appl. 2018 Sep;12(5):e1700101. doi: 10.1002/prca.201700101. Epub 2018 Jun 13.

PMID:
29742327
4.

Proteomics of the Human Olfactory Tract.

Dammalli M, Dey G, Kumar M, Madugundu AK, Gopalakrishnan L, Gowrishankar BS, Mahadevan A, Shankar SK, Prasad TSK.

OMICS. 2018 Jan;22(1):77-87. doi: 10.1089/omi.2017.0155.

PMID:
29356628
5.

BioSITe: A Method for Direct Detection and Quantitation of Site-Specific Biotinylation.

Kim DI, Cutler JA, Na CH, Reckel S, Renuse S, Madugundu AK, Tahir R, Goldschmidt HL, Reddy KL, Huganir RL, Wu X, Zachara NE, Hantschel O, Pandey A.

J Proteome Res. 2018 Feb 2;17(2):759-769. doi: 10.1021/acs.jproteome.7b00775. Epub 2017 Dec 28.

6.

Proteomic Analysis of the Human Olfactory Bulb.

Dammalli M, Dey G, Madugundu AK, Kumar M, Rodrigues B, Gowda H, Siddaiah BG, Mahadevan A, Shankar SK, Prasad TSK.

OMICS. 2017 Aug;21(8):440-453. doi: 10.1089/omi.2017.0084.

PMID:
28816642
7.

Mosquito-Borne Diseases and Omics: Tissue-Restricted Expression and Alternative Splicing Revealed by Transcriptome Profiling of Anopheles stephensi.

Sreenivasamurthy SK, Madugundu AK, Patil AH, Dey G, Mohanty AK, Kumar M, Patel K, Wang C, Kumar A, Pandey A, Prasad TSK.

OMICS. 2017 Aug;21(8):488-497. doi: 10.1089/omi.2017.0073. Epub 2017 Jul 14.

PMID:
28708456
8.

PfCDPK1 mediated signaling in erythrocytic stages of Plasmodium falciparum.

Kumar S, Kumar M, Ekka R, Dvorin JD, Paul AS, Madugundu AK, Gilberger T, Gowda H, Duraisingh MT, Keshava Prasad TS, Sharma P.

Nat Commun. 2017 Jul 5;8(1):63. doi: 10.1038/s41467-017-00053-1.

9.

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.

10.

Toward Postgenomics Ophthalmology: A Proteomic Map of the Human Choroid-Retinal Pigment Epithelium Tissue.

Dammalli M, Murthy KR, Pinto SM, Murthy KB, Nirujogi RS, Madugundu AK, Dey G, Nair B, Gowda H, Keshava Prasad TS.

OMICS. 2017 Feb;21(2):114-122. doi: 10.1089/omi.2016.0170.

PMID:
28186866
11.

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.

12.

Proteomic profiling of retinoblastoma by high resolution mass spectrometry.

Danda R, Ganapathy K, Sathe G, Madugundu AK, Ramachandran S, Krishnan UM, Khetan V, Rishi P, Keshava Prasad TS, Pandey A, Krishnakumar S, Gowda H, Elchuri SV.

Clin Proteomics. 2016 Oct 26;13:29. eCollection 2016.

13.

Characterization of human pineal gland proteome.

Yelamanchi SD, Kumar M, Madugundu AK, Gopalakrishnan L, Dey G, Chavan S, Sathe G, Mathur PP, Gowda H, Mahadevan A, Shankar SK, Prasad TS.

Mol Biosyst. 2016 Nov 15;12(12):3622-3632.

PMID:
27714013
14.

A Comprehensive Proteomics Analysis of the Human Iris Tissue: Ready to Embrace Postgenomics Precision Medicine in Ophthalmology?

Murthy KR, Dammalli M, Pinto SM, Murthy KB, Nirujogi RS, Madugundu AK, Dey G, Subbannayya Y, Mishra UK, Nair B, Gowda H, Prasad TS.

OMICS. 2016 Sep;20(9):510-9. doi: 10.1089/omi.2016.0100.

PMID:
27631190
15.

Proteogenomics of Candida tropicalis--An Opportunistic Pathogen with Importance for Global Health.

Datta KK, Patil AH, Patel K, Dey G, Madugundu AK, Renuse S, Kaviyil JE, Sekhar R, Arunima A, Daswani B, Kaur I, Mohanty J, Sinha R, Jaiswal S, Sivapriya S, Sonnathi Y, Chattoo BB, Gowda H, Ravikumar R, Prasad TS.

OMICS. 2016 Apr;20(4):239-47. doi: 10.1089/omi.2015.0197.

16.

Proteogenomic Methods to Improve Genome Annotation.

Datta KK, Madugundu AK, Gowda H.

Methods Mol Biol. 2016;1410:77-89. doi: 10.1007/978-1-4939-3524-6_5.

PMID:
26867739
17.

Characterization of host response to Cryptococcus neoformans through quantitative proteomic analysis of cryptococcal meningitis co-infected with HIV.

Selvan LD, Sreenivasamurthy SK, Kumar S, Yelamanchi SD, Madugundu AK, Anil AK, Renuse S, Nair BG, Gowda H, Mathur PP, Satishchandra P, Shankar SK, Mahadevan A, Keshava Prasad TS.

Mol Biosyst. 2015 Sep;11(9):2529-40. doi: 10.1039/c5mb00187k.

PMID:
26181685
18.

PGTools: A Software Suite for Proteogenomic Data Analysis and Visualization.

Nagaraj SH, Waddell N, Madugundu AK, Wood S, Jones A, Mandyam RA, Nones K, Pearson JV, Grimmond SM.

J Proteome Res. 2015 May 1;14(5):2255-66. doi: 10.1021/acs.jproteome.5b00029. Epub 2015 Apr 17.

PMID:
25760677
19.

Comprehensive proteomics analysis of glycosomes from Leishmania donovani.

Jamdhade MD, Pawar H, Chavan S, Sathe G, Umasankar PK, Mahale KN, Dixit T, Madugundu AK, Prasad TS, Gowda H, Pandey A, Patole MS.

OMICS. 2015 Mar;19(3):157-70. doi: 10.1089/omi.2014.0163.

20.

Host response profile of human brain proteome in toxoplasma encephalitis co-infected with HIV.

Sahu A, Kumar S, Sreenivasamurthy SK, Selvan LD, Madugundu AK, Yelamanchi SD, Puttamallesh VN, Dey G, Anil AK, Srinivasan A, Mukherjee KK, Gowda H, Satishchandra P, Mahadevan A, Pandey A, Prasad TS, Shankar SK.

Clin Proteomics. 2014 Nov 1;11(1):39. doi: 10.1186/1559-0275-11-39. eCollection 2014.

21.

Proteomic analysis and genome annotation of Pichia pastoris, a recombinant protein expression host.

Renuse S, Madugundu AK, Kumar P, Nair BG, Gowda H, Prasad TS, Pandey A.

Proteomics. 2014 Dec;14(23-24):2769-79. doi: 10.1002/pmic.201400267. Epub 2014 Nov 20.

PMID:
25346215
22.

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.

23.

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.

24.

Chromosome-centric human proteome project: deciphering proteins associated with glioma and neurodegenerative disorders on chromosome 12.

Gupta MK, Jayaram S, Madugundu AK, Chavan S, Advani J, Pandey A, Thongboonkerd V, Sirdeshmukh R.

J Proteome Res. 2014 Jul 3;13(7):3178-90. doi: 10.1021/pr500023p. Epub 2014 Jun 24.

PMID:
24804578
25.

Proteogenomic analysis of pathogenic yeast Cryptococcus neoformans using high resolution mass spectrometry.

Nagarajha Selvan LD, Kaviyil JE, Nirujogi RS, Muthusamy B, Puttamallesh VN, Subbannayya T, Syed N, Radhakrishnan A, Kelkar DS, Ahmad S, Pinto SM, Kumar P, Madugundu AK, Nair B, Chatterjee A, Pandey A, Ravikumar R, Gowda H, Prasad TS.

Clin Proteomics. 2014 Feb 3;11(1):5. doi: 10.1186/1559-0275-11-5.

26.

Characterizing the normal proteome of human ciliary body.

Goel R, Murthy KR, Srikanth SM, Pinto SM, Bhattacharjee M, Kelkar DS, Madugundu AK, Dey G, Mohan SS, Krishna V, Prasad TK, Chakravarti S, Harsha HC, Pandey A.

Clin Proteomics. 2013 Aug 1;10(1):9. doi: 10.1186/1559-0275-10-9.

27.

Proteomic analysis of purified protein derivative of Mycobacterium tuberculosis.

Prasad TS, Verma R, Kumar S, Nirujogi RS, Sathe GJ, Madugundu AK, Sharma J, Puttamallesh VN, Ganjiwale A, Myneedu VP, Chatterjee A, Pandey A, Harsha H, Narayana J.

Clin Proteomics. 2013 Jul 19;10(1):8. doi: 10.1186/1559-0275-10-8.

28.

Multiple mechanisms contribute to lateral transfer of an organophosphate degradation (opd) island in Sphingobium fuliginis ATCC 27551.

Pandeeti EV, Longkumer T, Chakka D, Muthyala VR, Parthasarathy S, Madugundu AK, Ghanta S, Medipally SR, Pantula SC, Yekkala H, Siddavattam D.

G3 (Bethesda). 2012 Dec;2(12):1541-54. doi: 10.1534/g3.112.004051. Epub 2012 Dec 1.

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