Zhumur Ghosh

Zhumur Ghosh
Assistant Professor

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Previous appointments:

Nov 2008- March 2009 Postdoc at Indian Association for the Cultivation of Science

March 2009- June 2010 Postdoc at Stanford University School of Medicine

June 2010 - Nov 2010    Assistant Professor, Indian Institute of Technology (IIT) Guwahati, India


Research interests:

Regulatory RNA and stem cells

Contact:

Address: Bioinformatics Centre
Centenary Campus
Bose Institute
P-1/12 C.I.T. Scheme VII-M
Kolkata - 700054, India
E-Mail: zhumur[at]jcbose.ac.in
Phone: +91-33-25693329

Research:

Ghosh lab studies the role of regulatory RNAs towards modulating cancer stem cells. We are also interested to look into the role of these RNAs  in modulating cellular reprogramming towards shaping mammalian development. We use a combination of in silico and wet bench techniques to better understand the role of regulatory RNAs in stem cell biology. We are presently focused on miRNAs, piRNAs and long noncoding RNAs.

For more details visit my home page http://bicresources.jcbose.ac.in/zhumur/lab/






Publications:

  1. Deb A, Sarkar A and Ghosh Z. Dissecting the variation in transcriptional circuits between naive and primed pluripotent states. FEBS Lett. 2017 (DOI: 10.1002/1873-3468.12732) (IF 3.623)
  2. Sarkar D, Maji R, Dey S, Sarkar A, Ghosh Z and Kundu P. Integrated miRNA and mRNA expression profiling reveals the response regulators of a susceptible tomato cultivar to early blight disease. DNA Research 2017 (Accepted) (IF 5.267)

3.    Roy J, Sarkar A, Parida S, Ghozh Z, Mallick B. Small RNA sequencing revealed dysregulated piRNAs in Alzheimer's disease and their probable role in pathogenesis. Mol Biosyst. 2017. DOI: 10.1039/C6MB00699J. (IF 2.86)

4.    Sen K, Sarkar A, Maji RK, Ghosh Z, Gupta S, Ghosh TC. Deciphering the cross-talking of human competitive endogenous RNAs in K562 chronic myelogenous leukemia cell line. Mol Biosyst. 2016;12(12):3633-3642. (IF 2.86)

  1. Kundu M, Mahata B, Banerjee A, Chakraborty S, Debnath S, Ray SS, Ghosh Z, Biswas K. Ganglioside GM2 mediates migration of tumor cells by interacting with integrin and modulating the downstream signaling pathway. Biochim Biophys Acta. 2016; S0167-4889(16)30085-4. PMID: 27066976. (IF 5.128)
  2. Liu J, Masurekar A, Johnson S, Chakraborty S, Griffiths J, Smith D, Alexander S, Dempsey C, Parker C, Harrison S, Li Y, Miller C, Di Y, Ghosh Z, Krishnan S, Saha V. Stromal cell-mediated mitochondrial redox adaptation regulates drug resistance in childhood acute lymphoblastic leukemia. Oncotarget. 2015; 6(40):43048-64. PMID: 26474278. (IF 6.359)
  3. Halder P, Kumar R, Jana K, Chakraborty S, Ghosh Z, Kundu M, Basu J (2015). Gene expression profiling of Mycobacterium tuberculosis Lipoarabinomannan-treated macrophages: A role of the Bcl-2 family member A1 in inhibition of apoptosis in mycobacteria-infected macrophages. IUBMB Life. (doi: 10.1002/iub.1430) (IF 3.143)
  4. Kumar M, Sahu SK, Kumar R, Subuddhi A, Maji RK, Jana K, Gupta P, Raffetseder J, Lerm M, Ghosh Z, van Loo G, Beyaert R, Gupta UD, Kundu M, Basu J (2015). MicroRNA let-7 modulates the immune response to Mycobacterium tuberculosis infection via control of A20, an inhibitor of the NF-κB pathway. Cell Host Microbe 17(3):345-56 (IF 12.194)
  5. Chakraborty S, Deb A, Maji R K, Saha S and Ghosh Z (2014). LncRBase: An Enriched Resource for lncRNA Information. PLoS One (DOI: 10.1371/journal.pone.0108010) (IF  3.5)
  6. Ghosh Z and Mallick B (2014). Cancer stem cells and regulatory RNAs crosstalk: Fostering possibilities for cancer therapies. BioScience 64(12):1138-1149. [Advance Access: doi:10.1093/biosci/biu149] (IF 5.43)
  7. Sarkar A, Maji RK, Saha S and Ghosh Z (2014). piRNAQuest: searching the piRNAome for silencers, BMC Genomics 15(1):555. [Epub ahead of print]. (IF 4.04)
  8. Maji RK, Sarkar A, Khatua S, Dasgupta S and Ghosh Z (2014). PVT: An Efficient Computational Procedure to Speed up Next-generation Sequence Analysis. BMC Bioinformatics 15:167. (IF 2.67)
  9. Kumar R, Halder P, Sahu SK, Kumar M, Kumari M, Jana K, Ghosh Z, Sharma P, Kundu M, Basu J (2012). Identification of a novel role of ESAT-6-dependent miR-155 induction during infection of macrophages with Mycobacterium tuberculosis. Cell Microbiol. 14(10):1620-1631. (IF: 5.45)
  10. Hu S, Wilson KD, Ghosh Z, Han L, Wang Y, Lan F, Ransohoff KJ, Wu JC (2013). MicroRNA-302 increases reprogramming efficiency via repression of NR2F2. Stem Cells. 31(2):259-268. (IF: 7.78)
  11. Mallick B, Ghosh Z (2012) Probing evolutionary biography of microRNAs and associated factors. Curr Genomics. 13(2):144-152.
  12. Reddy S, Zhao M, Hu DQ, Fajardo G, Hu S, Ghosh Z, Rajagopalan V, Wu JC, Bernstein D (2012). Dynamic microRNA expression during the transition from right ventricular hypertrophy to failure. Physiol Genomics. 44(10):562-575. (IF: 2.73)
  13. Mallick B, Ghosh Z (2011). A complex crosstalk between polymorphic microRNA target sites and AD prognosis. RNA Biol. 8(4):665-673. (IF: 5.56).
  14. Ghosh Z, Huang M, Hu S, Wilson KD, Dey D, Wu JC (2011). Dissecting the oncogenic and tumorigenic potential of differentiated human induced pluripotent stem cells and human embryonic stem cells. Cancer Res. 71(14):5030-9. (IF: 7.85)
  15. Pearl JI, Leveson-Gower DB, Lee A, Sun N, Ghosh Z, Negrin RS, Davis MM, Wu JC (2011) Inducing immunotolerance to pluripotent stem cells for long-term engraftment. Cell Stem Cell 8 (3):309-317. (IF: 25.421).
  16. Li Z, Hu S, Ghosh Z, Han Z, Wu JC (2011). Functional comparison and expression profiling of human induced pluripotent stem cell- and embryonic stem cell-derived endothelial cells. Stem Cells Dev. 2011 Jan 14. [Epub ahead of print] PMID: 21235328. (IF: 4.146).
  17. Mallick B, Chakrabarti J, Ghosh Z (2011) microRNA reins in embryonic and cancer stem cells. RNA Biol. 8(3):415-426. (IF: 5.56).
  18. Hu S, Huang M, Li Z, Jia F, Ghosh Z, Lijkwan MA, Fasanaro P, Sun N, Wang X, Martelli F, Robbins RC, Wu JC (2010) MicroRNA-210 as a novel therapy for treatment of ischemic heart disease. Circulation 122(11 Suppl): S124-S31. (IF: 14.81).
  19. Wilson KD, Hu S, Venkatasubrahmanyam S, Fu JD, Sun N, Abilez OJ, Baugh JJ, Jia F, Ghosh Z, Li RA, Butte AJ, Wu JC (2010) Dynamic microRNA expression programs during cardiac differentiation of human embryonic stem cells: role for miR-499. Circ Cardiovasc Genet 3(5): 426-435.
  20. Ghosh Z, Wilson KD, Wu Y, Hu S, Quertermous T, Wu JC (2010) Persistent donor cell gene expression among human induced pluripotent stem cells contributes to differences with human embryonic stem cells. PLoS One 5(2): e8975. (IF: 4.35).
  21. Ghosh Z, Mallick B, Gautheret D, Malhotra P, Sachidanandam R (2009) Regulatory RNomics and gene expression. J Biomed Biotechnol: 691286. [Editorial]
  22. Ghosh Z, Mallick B, Chakrabarti J (2009) MicroRNome analysis unravels the molecular basis of SARS infection in bronchoalveolar stem cells. PLoS One 4(11): e7837. (IF: 4.35).
  23. Ghosh Z, Mallick B, Chakrabarti J (2009) Cellular versus viral microRNAs in host-virus interaction. Nucleic Acids Res. 37(4): 1035-48. (IF: 8.026).
  24. Mallick B, Ghosh Z, Chakrabarti J (2008) Structural determinants characteristic to AARS subclasses and tRNA-splicing endonuclease in eukaryotes. J Biomol Struct Dyn. 26(2): 223-34.
  25. Ghosh Z, Mallick B, Chakrabarti J (2008) MicroRNA switches in Trypanosoma brucei. Biochem Biophys Res Commun. 372(3): 459-463.  [Faculty 1000 Biology recommended]. (IF: 2.54).
  26. Koehrer C, Srinivasan G, Mandal D, Mallick B, Ghosh Z, Chakrabarti J, Rajbhandary UL (2008) Identification and characterization of a tRNA decoding the rare AUA codon in Haloarcula marismortui. RNA. 14(1): 117-126. [Appeared on Cover page]. (IF: 5.19).
  27. Ghosh Z, Chakrabarti J, Mallick B (2007) miRNomics-The bioinformatics of microRNA genes. Biochem Biophys Res Commun. 363(1): 6-11. (IF: 2.54).
  28.  Mallick B, Chakrabarti J, Sahoo S, Ghosh Z, Das S (2005) Identity elements of archaeal tRNA. DNA Res. 12(4): 235-246. (IF: 4.91).
  29. Ghosh Z, Chakrabarti J, Mallick B, Das S, Sahoo S, Sethi HS (2006) tRNA-isoleucine-tryptophan composite gene. Biochem Biophys Res Commun. 339(1): 37-40. (IF: 2.54).
  30. Das S, Chakrabarti J, Ghosh Z, Sahoo S, Mallick B (2005) A new measure to study phylogenetic relations in the brown algal order Ectocarpales: the ‘codon impact parameter’. J Biosci. 30(5): 699-709. (IF: 1.70).

 

 



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Recognition:

  • Associate Fellow, Indian Academy of Science, 2011-2014
  • Member of the National Academy of Science, 2017

Teaching:

Present:

Image Name Designation Department Campus Contact number Email
profile image Aritra Deb SRF Bioinformatics Centre Centenary 25693275 aritra
profile image Byapti Ghosh JRF Bioinformatics Centre Centenary 25693275 byapti@mail.jcbose.ac.in
profile image Ranjan Kumar Maji SRF Bioinformatics Centre Centenary 25693275 maji
profile image Sibun Parida SRF Bioinformatics Centre Centenary 25693275 sibun
profile image Sohini Chakraborty SRF Bioinformatics Centre Centenary 25693275 sohini
profile image Troyee Das JRF Bioinformatics Centre Centenary 25693275 troyee

Former:

Arijita Sarkar (Senior Research Fellow)

Sohini Chakraborty (Senior Research Fellow)

Ranjan Kumar Maji (RA)

Aritra Deb (Senior Research Fellow)

Sibun Parida (RA)

Byapti Ghosh (JRF)



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