Ganesh, R. A., Sonpatki, P., Naik, D., John, A. E., Sathe, G., Lakshmikantha, A., Chandrachari, K. P., Bauer, L., Knäuper, V., Aeschlimann, D., Venkatraaman, K., Shah, N. and Sirdeshmukh, R. (2022). Multi-Omics Analysis of Glioblastoma and Glioblastoma Cell Line: Molecular Insights into the Functional Role of GPR56 and TG2 in Mesenchymal Transition. Frontiers in Oncology. [PubMed]

Hari, P. S., Balakrishnan, L., Kotyada, C., Everad John, A., Tiwary, S., Shah, N. and Sirdeshmukh, R. (2022) Proteogenomic Analysis of Breast Cancer Transcriptomic and Proteomic Data, Using De Novo Transcript Assembly: Genome-Wide Identification of Novel Peptides and Clinical Implications. Molecular & Cellular Proteomics. [PubMed]

Tripathi, P. H., Akhtar, J., Arora, J., Saran, R. K., Mishra, N., Polisetty, R. V., Sirdeshmukh, R. and Gautam, P. (2022). Quantitative proteomic analysis of GnRH agonist treated GBM cell line LN229 revealed regulatory proteins inhibiting cancer cell proliferation. BMC Cancer. [PubMed]

Priya, R., Jain, V., Akhtar, J., Chauhan, G., Sakhuja, P., Goyal, S., Agarwal, A. K., Javed, A., Jain, A. P., Polisetty, R. V., Sirdeshmukh, R., Kar, S., Gautam, P. (2021). Plasma-derived candidate biomarkers for detection of gallbladder carcinoma. Scientific Reports. 1, 23554. [PubMed]

Thakur, G., Sathe, G., Kundu, I., Gautam, B.B.P., Alkahtani, S.H., Idicula-Thomas, S., Sirdeshmukh, R., Kishore, U., Madan, T. (2020). Membrane interactome of a recombinant fragment of human SP-D reveals GRP78 as a novel binding partner in PC3, a metastatic prostate cancer cell line. Frontiers in Immunology. [PubMed]

Akhtar, J., Priya, R., Jain, V., Sakhuja, P., Agarwal, A.K., Goyal, S., Polisetty, R.V., Sirdeshmukh, R., Kar, S., Gautam, P. (2020). Immunoproteomics approach revealed elevated autoantibody levels against ANXA1 in early stage gallbladder carcinoma. BMC Cancer. 20,1175. [PubMed]

Ganesh, R.A., Venkataraman, K., Sirdeshmukh, R. (2020). GPR56: An adhesion GPCR involved in brain development, neurological disorders and cancer. Brain Research. 15,1747-147055. [PubMed]

Sivadasan, P., Gupta, M. K., Sathe, G., Sudheendra, H.V., Sunny, S.P., Renu, D., Hari, P.S., Gowda, H., Suresh, A., Kuriakose, M.A., Sirdeshmukh, R. (2020). Salivary proteins from dysplastic leukoplakia and oral squamous cell carcinoma and their potential for early detection. Journal of Proteomics. 10,212-103574. [PubMed]

Gupta, M. K., Polisetty, R. V., Sharma, R., Ganesh, R. A., Gowda, H., Purohit, A. K., Ankathi, P., Prasad, K., Mariswamappa, K., Lakshmikantha, A., Uppin, M. S., Sundaram, C., Gautam, P., Sirdeshmukh, R. (2019). Altered transcriptional regulatory proteins in glioblastoma and YBX1 as a potential regulator of tumor invasion. Scientific Reports. 9:10986. [Article]

Gavali, S., Gupta, M. K., Daswani, B., Wani, M. R., Sirdeshmukh, R., Khatkhatay, M. I. (2019). Estrogen enhances human osteoblast survival and function via promotion of autophagy. Biochimica et Biophysica Acta - Molecular Cell Research. 9:1498-1507. [Pubmed]

Gavali, S., Gupta, M. K., Daswani, B., Wani, M. R., Sirdeshmukh, R., Khatkhatay, M. I. (2019). LYN, a key mediator in estrogen-dependent suppression of osteoclast differentiation, survival, and function. Biochimica et Biophysica Acta - Molecular Basis of Disease. 3:547-557. [Pubmed]

Jayaram, S., Balakrishnan, L., Singh, M., Zabihi, A., Ganesh, R. A., Mangalaparthi, K. K., Sonpatki, P., Gupta, M. K., Amaresha, C. B., Prasad, K., Mariswamappa, K., Pillai, S., Lakshmikantha, A., Shah, N. and Sirdeshmukh, R. (2018). Identification of a Novel Splice Variant of Neural Cell Adhesion Molecule (NCAM1) in Glioblastoma through Proteogenomic Analysis. OMICS: A Journal of Integrative Biology. 6:437-448. [Pubmed]

Sirdeshmukh, R., Jayaram, S., Gupta, M. K., Sonpatki, P., Singh, M., Ganesh, R. A., Amaresha, C. B. and Shah, N. (2017). Current Proteomic Approaches Applied to Brain Function - Integration of Transcriptomics and Proteomic Data for Disease Insights. NeuroMethods. 325-356. [PubMed]

Jayaram, S., Gupta, M. K., Raju R., Gautam, P., Sirdeshmukh, R. (2016). Multi-Omics Data Integration and Mapping of Altered Kinases to Pathways Reveal Gonadotropin Hormone Signaling in Glioblastoma. Omics: A journal of integrative biology. 20, 736-746. [PubMed]

Bhat, A. R., Gupta, M. K., Krithivasan, P., Dhas, K., Nair, J., Reddy, R. B., Sudheendra, H. V., Chavan, S., Vardhan, H., Darsi, S., Balakrishnan, L., Katragadda, S., Kekatpure, V., Suresh, A., Tata, P., Panda, B., Kuriakose, M. A., and Sirdeshmukh, R. (2016). Sample Preparation Method Considerations for Integrated Transcriptomic and Proteomic Analysis of Tumors. Proteomics - Clinical Applications. [PubMed]

Gupta, M. K., Jayaram, S., Reddy, D. N., Polisetty, R. V. and Sirdeshmukh, R. (2015). Transcriptomic and Proteomic Data Integration and Two-Dimensional Molecular Maps with Regulatory and Functional Linkages: Application to Cell Proliferation and Invasion Networks in Glioblastoma. Journal of Proteome Research. 14, 5017-5027. [PubMed] 

Jayaram, S., Gupta M, K., Marigowda, S, B., Ghatge, M., Sharma, A., Vangala, R. K. and Sirdeshmukhb, R. (2015). Insights from chromosome-centric mapping of disease associated genes - chromosome 12 perspective. Journal of Proteome Research. [PubMed] 

Sivadasan, P., Gupta, M. K., Sathe, G. J., Balakrishnan, L., Palit, P., Gowda, H., Suresh, A., Kuriakose, M. A. and Sirdeshmukhb, R. (2015). Data from Human salivary proteome - a resource of potential biomarkers for oral Cancer. Data in Brief. [PubMed] 

Daswani, B., Gupta, M. K., Gavali, S., Desai, M., Sathe, G. J., Patil, A., Parte, P., Sirdeshmukh, R. and Khatkhatay, M. I. (2015). Monocyte Proteomics Reveals Involvement of Phosphorylated HSP27 in the Pathogenesis of Osteoporosis. Disease Markers. 2015, 196589. [PubMed] 

Sivadasan, P., Gupta, M. K., Sathe, G. J., Balakrishnan, L., Palit, P., Gowda, H., Suresh, A., Kuriakose, M. A. and Sirdeshmukh, R. (2015). Human salivary proteome - a resource of potential biomarkers for oral cancer. Journal of Proteomics. [PubMed] 

Sirdeshmukh, R. (2015). Indian proteomics efforts and human proteome project. Journal of Proteomics. [PubMed] 

Kim, M. S., Pinto, S. M., Getnet, D., Nirujogi, R. S., Manda, S. S., Chaerkady, R., Madugundu, A. K., Kelkar, D. S., Isserlin, R., Jain, S., Thomas, J. K., Muthusamy, B., Leal-Rojas, P., Kumar, P., Sahasrabuddhe, N. A., Balakrishnan, L., Advani, J., George, B., Renuse, S., Selvan, L. D. N., Patil, A. H., Nanjappa, V., Radhakrishnan, A., Prasad, S., Subbannayya, T., Raju, R., Kumar, M., Sreenivasamurthy, S. K., Marimuthu, A., Sathe, G. J., Chavan, S., Datta, K. K., Subbannayya, Y., Sahu, A., Yelamanchi, S. D., Jayaram, S., Rajagopalan, P., Sharma, J., Murthy, K. R., Syed, N., Goel, R., Khan, A. A., Ahmad, S., Dey, G., Mudgal, K., Chatterjee, A., Huang, T. C., Zhong, J., Wu, X., Shaw, P. G., Freed, D., Zahari, M. S., Mukherjee, K. K., Shankar, S., Mahadevan, A., Lam, H., Mitchell, C. J., Shankar, S. K., Satishchandra, P., Schroeder, J. T., Sirdeshmukh, R., Maitra, A., Leach, S. D., Drake, C. G., Halushka, M. K., Prasad, T. S. K., Hruban, R. H., Kerr, C. L., Bader, G. D., Iacobuzio-Donahue, C. A., Gowda, H. and Pandey, A. (2014). A draft map of the human proteome. Nature.  509, 575-581. [PubMed]

Gupta, M. K., Jayaram, S., Madugundu, A. K., Chavan, S., Advani, J., Pandey, A., Thongboonkerd, V., Sirdeshmukh, R. (2014). Chromosome-Centric Human Proteome Project: Deciphering Proteins Associated with Glioma and Neurodegenerative Disorders on Chromosome 12. Journal of Proteome Research. [PubMed]

Polisetty, R. V., Gautam, P., Gupta, M. K., Sharma, R., Uppin, M. S., Challa, S., Ankathi, P., Purohit, A. K., Renu, D., Harsha, H. C., Pandey, A. and Sirdeshmukh, R. (2013). Heterogeneous nuclear ribonucleoproteins and their interactors are a major class of deregulated proteins in anaplastic astrocytoma – a Grade III malignant glioma. Journal of Proteome Research. [PubMed]

Gupta, M. K., Polisetty, R. V., Ramamoorthy, K., Tiwary, S., Kaur, N., Shiras, A. and Sirdeshmukh, R. (2013). Secretome analysis of Glioblastoma cell line - HNGC-2. Molecular BioSystems. 9, 1390-1400. [PubMed]

Mushahary, D., Gautam, P., Sundaram, C. S. and Sirdeshmukh, R. (2013). Expanded protein expression profile of human placenta using two-dimensional gel electrophoresis. Placenta. 34, 193-196. [PubMed]

Gautam, P., Nair, S. C., Gupta, M. K., Sharma, R., Polisetty, R. V., Uppin, M. S., Challa, S., Puligopu, A. K., Ankathi, P., Purohit, A. K., Chandak, G. R., Harsha, H. C. and Sirdeshmukh, R. (2012). Proteins with altered levels in plasma from glioblastoma patients as revealed by iTRAQ-based quantitative proteomic analysis. PLOS ONE. 7, e46153. [PubMed]

Pawar, H., Maharudraiah, J., Kashyap, M. K., Sharma, J., Srikanth, M. S., Choudhary, R., Chavan, S., Sathe, G., Manju, H .C., Veerendra Kumar, K. V., Vijayakumar, M., Sirdeshmukh, R., Harsha, H. C., Prasad, T. S. K., Pandey, A. and Kumar, R. V. (2012). Downregulation of cornulin in esophageal squamous cell carcinoma. Acta Histochemica. 115, 89-99. [PubMed]

Polisetty, R. V., Gautam, P., Sharma, R., Harsha, H. C., Nair, S. C., Gupta, M. K., Uppin, M. S., Challa, S., Puligopu, A. K., Ankathi, P., Purohit, A. K., Chandak, G. R., Pandey, A. and Sirdeshmukh, R. (2012). LC-MS/MS Analysis of Differentially Expressed Glioblastoma Membrane Proteome Reveals Altered Calcium Signalling and other Protein Groups of Regulatory Functions. Molecular and Cellular Proteomics. 11, M111.013565. [PubMed]

Gautam, P., Upadhyay, S. K., Hassan, W., Madan, T., Sirdeshmukh, R., Sundaram, C. S., Gade, W. N., Basir, S. F., Singh, Y. and Sarma, P. U. Transcriptomic and proteomic profile of Aspergillus fumigatus on exposure to artemisinin. Mycopathologia. 2011. 172, 331-346. [PubMed]

Polisetty, R. V., Gupta, M. K., Nair, S. C., Ramamoorthy, K., Tiwary, S., Shiras, A., Chandak, G. R. and Sirdeshmukh, R. Glioblastoma cell secretome: analysis of three glioblastoma cell lines reveal 148 non-redundant proteins. Journal of Proteomics. 2011. 74, 1918-1925. [PubMed]

Peng, L., Kapp, E. A., Fenyo, D., Kwon, M. S., Jiang, P., Wu, S., Jiang, Y., Aguilar, M. I., Ahmed, N., Baker, M. S., Cai, Z., Chen, Y. J., Van, C. h. i., Chung, M. C., He, F., Len, A. C., Liao, P. C., Nakamura, K., Ngai, S. M., Paik, Y. K., Pan, T. L., Poon, T. C., Salekdeh, G. H., Simpson, R. J., Sirdeshmukh, R., Srisomsap, C., Svasti, J., Tyan, Y. C., Dreyer, F. S., McLauchlan, D., Rawson, P. and Jordan, T. W.  The Asia Oceania Human Proteome Organisation Membrane Proteomics Initiative. Preparation and characterisation of the carbonate-washed membrane standard. Proteomics. 2010.  10, 4142-4148. [PubMed]

Govekar, R. B., D'Cruz, A. K., Alok, P., Agarwal, J., Dinshaw, K. A., Chinoy, R. F., Gadewal, N., Kannan, S., Sirdeshmukh, R., Sundaram, C. S., Malgundkar, S. A., Kane, S. V. and Zingde, S. M.  Proteomic profiling of cancer of the gingivo-buccal complex: Identification of new differentially expressed markers. Proteomics - Clinical Applications. 2009.  3, 1451-1462. [PubMed]

Gautam, P., Shankar, J., Madan, T., Sirdeshmukh, R., Sundaram, C. S., Gade, W. N., Basir, S. F. and Sarma, P. U.  Proteomic and transcriptomic analysis of Aspergillus fumigatus on exposure to amphotericin B. Antimicrobial Agents and Chemotherapy. 2008.  52, 4220-4227. [PubMed]

Sirdeshmukh, R.  Proteomics in India: an overview. Molecular & Cellular Proteomics. 2008.  7, 1406-1407. [PubMed]

Mathivanan, S., Ahmed, M., Ahn, N. G., Alexandre, H., Amanchy, R., Andrews, P. C., Bader, J. S., Balgley, B. M., Bantscheff, M., Bennett, K. L., Bjorling, E., Blagoev, B., Bose, R., Brahmachari, S. K., Burlingame, A. S., Bustelo, X. R., Cagney, G., Cantin, G. T., Cardasis, H. L., Celis, J. E., Chaerkady, R., Chu, F., Cole, P. A., Costello, C. E., Cotter, R. J., Crockett, D., DeLany, J. P., De, M., DeSouza, L. V., Deutsch, E. W., Dransfield, E., Drewes, G., Droit, A., Dunn, M. J., Elenitoba-Johnson, K., Ewing, R. M., Van, E. y. k., Faca, V., Falkner, J., Fang, X., Fenselau, C., Figeys, D., Gagne, P., Gelfi, C., Gevaert, K., Gimble, J. M., Gnad, F., Goel, R., Gromov, P., Hanash, S. M., Hancock, W. S., Harsha, H. C., Hart, G., Hays, F., He, F., Hebbar, P., Helsens, K., Hermeking, H., Hide, W., Hjerno, K., Hochstrasser, D. F., Hofmann, O., Horn, D. M., Hruban, R. H., Ibarrola, N., James, P., Jensen, O. N., Jensen, P. H., Jung, P., Kandasamy, K., Kheterpal, I., Kikuno, R. F., Korf, U., Korner, R., Kuster, B., Kwon, M. S., Lee, H. J., Lee, Y. J., Lefevre, M., Lehvaslaiho, M., Lescuyer, P., Levander, F., Lim, M. S., Lobke, C., Loo, J. A., Mann, M., Martens, L., Martinez-Heredia, J., McComb, M., McRedmond, J., Mehrle, A., Menon, R., Miller, C. A., Mischak, H., Mohan, S. S., Mohmood, R., Molina, H., Moran, M. F., Morgan, J. D., Moritz, R., Morzel, M., Muddiman, D. C., Nalli, A., Navarro, J. D., Neubert, T. A., Ohara, O., Oliva, R., Omenn, G. S., Oyama, M., Paik, Y. K., Pennington, K., Pepperkok, R., Periaswamy, B., Petricoin, E. F., Poirier, G. G., Prasad, T. S., Purvine, S. O., Rahiman, B. A., Ramachandran, P., Ramachandra, Y. L., Rice, R. H., Rick, J., Ronnholm, R. H., Salonen, J., Sanchez, J. C., Sayd, T., Seshi, B., Shankari, K., Sheng, S. J., Shetty, V., Shivakumar, K., Simpson, R. J., Sirdeshmukh, R., Siu, K. W., Smith, J. C., Smith, R. D., States, D. J., Sugano, S., Sullivan, M., Superti-Furga, G., Takatalo, M., Thongboonkerd, V., Trinidad, J. C., Uhlen, M., Vandekerckhove, J., Vasilescu, J., Veenstra, T. D., Vidal-Taboada, J. M., Vihinen, M., Wait, R., Wang, X., Wiemann, S., Wu, B., Xu, T., Yates, J. R., Zhong, J., Zhou, M., Zhu, Y., Zurbig, P. and Pandey, A.  Human Proteinpedia enables sharing of human protein data. Nature Biotechnology. 2008.  26, 164-167. [PubMed]

Shukla, S., Govekar, R. B., Sirdeshmukh, R., Sundaram, C. S., D'Cruz, A. K., Pathak, K. A., Kane, S. V. and Zingde, S. M.  Tumor antigens eliciting autoantibody response in cancer of gingivo-buccal complex. Proteomics - Clinical Applications. 2007.  1, 1592-1604. [PubMed]

Suhasini, A. N. and Sirdeshmukh, R.  Onconase action on tRNA(Lys3), the primer for HIV-1 reverse transcription. Biochemical and Biophysical Research Communications. 2007.  363, 304-309. [PubMed]

Gautam, P., Sundaram, C. S., Madan, T., Gade, W. N., Shah, A., Sirdeshmukh, R. and Sarma, P. U.  Identification of novel allergens of Aspergillus fumigatus using immunoproteomics approach. Clinical and Experimental Allergy : Journal of the British Society for Allergy. 2007.  37, 1239-1249. [PubMed]

Sirdeshmukh, R.  Fostering proteomics in India. Journal of Proteome Research. 2006.  5, 2879. [PubMed]

Sharma, S., Sundaram, C. S., Luthra, P. M., Singh, Y., Sirdeshmukh, R. and Gade, W. N.  Role of proteins in resistance mechanism of Pseudomonas fluorescens against heavy metal induced stress with proteomics approach. Journal of Biotechnology. 2006.  126, 374-382. [PubMed]

Sirdeshmukh, R., Santosh, V., Srikanth, A. (2006) Differential protein expression, protein profiles of human gliomas and clinical implications. Bio Arrays – from Basics to diagnostics, 1st Ed., pp. 145 – 69, Editor- Appasani, K. Humana Press, N.J., USA

Suhasini, A. N. and Sirdeshmukh, R.  Transfer RNA cleavages by onconase reveal unusual cleavage sites. The Journal of Biological Chemistry. 2006.  281, 12201-12209. [PubMed]

Chumbalkar, V. C., Subhashini, C., Dhople, V. M., Sundaram, C. S., Jagannadham, M. V., Kumar, K. N., Srinivas, P. N., Mythili, R., Rao, M. K., Kulkarni, M. J., Hegde, S., Hegde, A. S., Samual, C., Santosh, V., Singh, L. and Sirdeshmukh, R.  Differential protein expression in human gliomas and molecular insights. Proteomics. 2005.  5, 1167-1177. [PubMed]

Chandra, H., Gupta, P. K., Sharma, K., Mattoo, A. R., Garg, S. K., Gade, W. N., Sirdeshmukh, R., Maithal, K. and Singh, Y.  Proteome analysis of mouse macrophages treated with anthrax lethal toxin. Biochimica et Biophysica Acta. 2005.  1747, 151-159. [PubMed]

Saxena, S. K., Sirdeshmukh, R., Ardelt, W., Mikulski, S. M., Shogen, K. and Youle, R. J.  Entry into cells and selective degradation of tRNAs by a cytotoxic member of the RNase A family. The Journal of Biological Chemistry. 2002.  277, 15142-15146. [PubMed]

Murthy, B. S., De, L., Piccoli, R., D'Alessio, G. and Sirdeshmukh, R.  Effects of protein RNase inhibitor and substrate on the quaternary structures of bovine seminal RNase. Biochemistry. 1996.  35, 3880-3885. [PubMed]

Tharun, S. and Sirdeshmukh, R.  Specific endonucleolytic cleavages of mouse albumin mRNA and their modulation during liver development. Nucleic Acids Research. 1995.  23, 641-646. [PubMed]

Rao, K. S., Sirdeshmukh, R. and Gupta, P. D.  Modulation of cytosolic RNase activity by endogenous RNase inhibitor in rat vaginal epithelial cells on estradiol administration. FEBS Letters. 1994.  343, 11-14. [PubMed]

Murthy, B. S. and Sirdeshmukh, R.  Sensitivity of monomeric and dimeric forms of bovine seminal ribonuclease to human placental ribonuclease inhibitor. The Biochemical Journal. 1992.  281 ( Pt 2), 343-348. [PubMed]

Krych, M., Sirdeshmukh, R., Gourse, R. and Schlessinger, D.  Processing of Escherichia coli 16S rRNA with bacteriophage lambda leader sequences. Journal of Bacteriology. 1987.  169, 5523-5529. [PubMed]

Schlessinger, D., Thomas, J. R., Krych, M., Sirdeshmukh, R. and Little, R. D.  Ribosomal RNA processing in Escherichia coli and cultured mammalian cells. Biochemical Society Transactions. 1986.  14, 811-813. [PubMed]

Sirdeshmukh, R. and Schlessinger, D.  Why is processing of 23 S ribosomal RNA in Escherichia coli not obligate for its function? Journal of Molecular Biology. 1985.  186, 669-672. [PubMed]

Sirdeshmukh, R. and Schlessinger, D.  Ordered processing of Escherichia coli 23S rRNA in vitro. Nucleic Acids Research. 1985.  13, 5041-5054. [PubMed]

Schlessinger, D., Bolla, R. I., Sirdeshmukh, R. and Thomas, J. R.  Spacers and processing of large ribosomal RNAs in Escherichia coli and mouse cells. BioEssays : News and Reviews in Molecular, Cellular and Developmental Biology. 1985.  3, 14-18. [PubMed]

Sirdeshmukh, R., Krych, M. and Schlessinger, D.  Escherichia coli 23S ribosomal RNA truncated at its 5' terminus. Nucleic Acids Research. 1985.  13, 1185-1192. [PubMed]

Sirdeshmukh, R., Vijayarangam, D. and Bhargava, P. M.  E. coli RNA entrapped in large unilamellar liposomes is partially exposed. Indian Journal of Biochemistry & Biophysics. 1984.  21, 293-298. [PubMed]

King, T. C., Sirdeshmukh, R. and Schlessinger, D.  RNase III cleavage is obligate for maturation but not for function of Escherichia coli pre-23S rRNA. Proceedings of the National Academy of Sciences of the United States of America. 1984.  81, 185-188. [PubMed]

Sirdeshmukh, R. B. and Bhargava, P. M.  Uptake of exogenous RNA by rat-liver parenchymal cells in suspension prepared by the collagenase method. Indian Journal of Biochemistry & Biophysics. 1983.  20, 121-126. [PubMed]

Sirdeshmukh, R. and Bhargava, P. M.  Evidence for the presence of a cell-surface ribonuclease in mechanically prepared rat-liver cells in suspension. Bioscience Reports. 1982.  2, 751-760. [PubMed]