Projects per year
Personal profile
Biography
Partha Pratim Das. PhD
Principal Investigator/ Lab Head
Epigenetics and Gene Regulation Laboratory Monash Biomedicine Discovery Institute Department of Anatomy and Developmental Biology Monash University
Education
1) PhD, Molecular and Developmental Biology
Summa cum laude
Wellcome Trust/ Cancer Research UK Gurdon Institute, University of Cambridge, UK; and University of Gottingen, Germany (2009)
2) MSc, Molecular Biology
International Max Planck Research School For Molecular Biology, Gottingen & University of Gottingen, Germany (2004)
3) MSc, Zoology and Molecular Biology
Department of Zoology, University of Pune, India (2002)
Research experience chronology
1) Post-doctoral Research Fellow, Supervisor: Stuart Orkin, MD
Boston Children’s Hospital/Dana Farber Cancer Center, Harvard Medical School, Boston, MA, USA (March 2010 - December 2016)
2) Graduate student, Supervisor: Eric Miska, PhD
Wellcome Trust/Cancer Research UK Gurdon Institute, University of Cambridge, Cambridge, UK (April 2005-July, 2009)
3) Research student, Supervisor: Ludger Hengst, PhD
Max Planck Institute For Biochemistry, Martinsried, Germany (September 2003-March 2005)
4) Research student, Supervisor: Dileep Deobagkar, PhD
Department of Zoology, University of Pune, India (June 2001-July 2002)
Honours & Accolades
-London Law Trust Medal Fellowship at King’s College London (2016-2018) to start up the independent lab
-Cancer Research UK (2005- 2009)
-Max Planck Research fellowships (2003 Sep -2005 Mar)
-Max Planck Research fellowships (Sep 2002- Aug 2003) during the study of MSc
Publications
1. Canver MC, Lessard S, Pinello L, Wu Y, Ilboudo Y, Stern EN, Needleman AJ, Galactéros F, Brugnara C, Kutlar A, McKenzie C, Reid M, Chen DD, Das PP, Kurita R, Nakamura Y, Yuan GC, Lettre G, Bauer DE, Orkin SH. Variant-aware saturating mutagenesis using multiple Cas9 nucleases identifies regulatory elements at trait-associated loci. Nature Genetics (2017 Apr;49(4):625-634)
2. Beyaz S, Kim JH, Pinello L, Hu Y, Kerenyi MA, Das PP, Barnitz RA, Xifaras ME, Dogum R, Huang J, Haining WN, Yilmaz O, Yuan GC, Orkin SH, Winau F. UTX controls lineage-specific epigenetic program and development of iNKT cells. Nature Immunology (2017 Feb;18(2):184-195)
3. Xie H, Peng C, Huang J, Li BE, Kim W, Smith EC, Fujiwara Y, Qi J, Cheloni G, Das PP, Nguyen M, Li S, Bradner JE, Orkin SH. Chronic myelogenous leukemia-initiating cells require Polycomb group protein EZH2. Cancer Discovery (2016 Sep 14. pii: CD-15- 1439 2016)
4. Das PP, Hendrix DA, Apostolou E, Buchner AH, Canver MC, Beyaz S, Ljuboja D, Kuintzle R, Kim W, Karnik R, Shao Z, Xie H, Xu J, De Los Angeles A, Zhang Y, Choe J, Jun DL, Shen X, Gregory RI, Daley GQ, Meissner A, Kellis M, Hochedlinger K, Kim J, Orkin SH. PRC2 is required to maintain expression of the maternal Gtl2-Rian-Mirg locus by preventing de novo DNA methylation in mouse embryonic stem cells. Cell Reports (2015 Sep 1;12(9):1456-70)
5. Kim PG, Das PP, Rowe RG, Nakano H, Chou SS, Ross SJ, Chen MJ, Sakamoto KM, Zon LI, Nakano A, Orkin SH, Daley GQ. Flow-induced Protein Kinase A/ CREB pathway acts via BMP signalling to promote AGM hematopoiesis. J Exp Med (2015 May 4;212(5):633-48)
6. Maier VK, Feeney CM, Taylor JE, Creech AL, Qiao JW, Szanto, Das PP, Chevrier N, Cifuentes-Rojas C, Orkin SH, Carr SA, Ja e JD, Mertins P, Lee JT. Quantitative and functional proteomics identify ZNF518B as a positive regulator of G9A histone methyltransferase. Mol Cell Proteomics (2015 Jun;14(6):1435-46)
7. Das PP, Shao Z, Beyaz S, Apostolou E, Pinello L, Los Angeles AD, O’Brien K, Atsma JM, Fujiwara Y, Nguyen M, Ljuboja D, Guo G, Woo A, Yuan GC, Onder T, Daley GQ, Hochedlinger K, Kim J, Orkin SH. Distinct and combinatorial functions of Jmjd2b/Kdm4b and Jmjd2c/Kdm4c in mouse embryonic stem cells identity. Molecular Cell (2014 Jan 9; 53(1): 32-48)
8. Guo G, Luc S, Marco E, Lin TW, Peng C, Kerenyi MA, Beyaz S, Kim W, Xu J, Das PP, Ne T, Zou K, Yuan GC, Orkin SH. Mapping the hematopoietic hierarchy by single-cell analysis of the cell surface repertoire. Cell Stem Cell (2013 Oct 3; 13(4): 492-505)
9. Lykke-Andersen K, Gilchrist MJ, Grabarek JB, Das PP, Miska EA, Zernicka-Goetz M. Maternal Argonaute 2 is essential for early mouse development at the maternal-zygotic transition. MBC (2008 Oct; 19(10): 4383-92)
10. Das PP, Bagijn MP, Goldstein LD, Woolford JR, Lehrbach NJ, Sapetschnig A, Buhecha HR, Gilchrist MJ, Howe KL, Stark R, Mat- thews N, Berezikov E, Ketting RF, Tavare S, Miska EA. Piwi and piRNAs act upstream of an endogenous siRNA pathway to suppress Tc3 transposon mobility in the Caenorhabditis elegans germline. Molecular Cell (2008 Jul 11; 31(1): 79-90)
11. Hayashi K, Chuva de Sousa Lopes SM, Kaneda M, Tang F, Hajkova P, Lao K, O’Carroll D, Das PP, Tarakhovsky A, Miska EA, Surani MA. MicroRNA biogenesis is required for mouse primordial germ cell development and spermatogenesis. PLoS ONE (2008 Mar 5; 3(3): e1738)
12. Vigorito E, Perks KL, Abreu-Goodger C, Bunting S, Xiang Z, Kohlhaas S, Das PP, Miska EA, Rodriguez A, Bradley A, Smith KG, Rada C, Enright AJ, Toellner KM, Maclennan IC, Turner M. microRNA-155 regulates the generation of immunoglobulin class-switched plasma cells. Immunity (2007 Dec; 27(6): 847-59)
13. O’carroll D, Mecklenbrauker I, Das PP, Santana A, Koenig U, Enright AJ, Miska EA, Tarakhovsky. A Slicer-independent role for Argonaute 2 in hematopoiesis and the microRNA pathway. Genes & Development (2007 Aug 15; 21(16): 1999-2004)
14. Rodriguez A, Vigorito E, Clare S, Warren MV, Couttet P, Soond DR, van Dongen S, Grocock RJ, Das PP, Miska EA, Vetrie D, Okkenhaug K, Enright AJ, Dougan G, Turner M, Bradley. A Requirement of bic/microRNA-155 for normal immune function. Science (2007 Apr 27; 316(5824): 608-11)
15. Lujambio A, Ropero S, Ballestar E, Fraga MF, Cerrato C, Setien F, Casado S, Suarez-Gauthier A, Sanchez-Cespedes M, Gitt A, Spiteri I, Das PP, Caldas C, Miska EA, Esteller M. Genetic unmasking of an epigenetically silenced microRNA in human cancer cells. Cancer Research (2007 Feb 15; 67(4): 1424-9)
Expertise related to UN Sustainable Development Goals
In 2015, UN member states agreed to 17 global Sustainable Development Goals (SDGs) to end poverty, protect the planet and ensure prosperity for all. This person’s work contributes towards the following SDG(s):
Research area keywords
- Epigenetics
- Epitranscriptomics
- Embryonic stem cells
- Regulatory elements
- Genome editing
- RNA editing
- Neuroscience
- Cancer
- Computational biology
Network
-
RNA methylation in normal and malignant blood development
Kats, L. & Das, P.
1/01/20 → 31/12/22
Project: Research
Research output
- 22 Article
-
Mutations inhibiting KDM4B drive ALT activation in ATRX-mutated glioblastomas
Udugama, M., Hii, L., Garvie, A., Cervini, M., Vinod, B., Chan, F. L., Das, P. P., Mann, J. R., Collas, P., Voon, H. P. J. & Wong, L. H., 10 May 2021, In: Nature Communications. 12, 1, 11 p., 2584.Research output: Contribution to journal › Article › Research › peer-review
Open Access2 Citations (Scopus) -
ABCA12 regulates insulin secretion from β-cells
Ursino, G. M., Fu, Y., Cottle, D. L., Mukhamedova, N., Jones, L. K., Low, H., Tham, M. S., Gan, W. J., Mellett, N. A., Das, P. P., Weir, J. M., Ditiatkovski, M., Fynch, S., Thorn, P., Thomas, H. E., Meikle, P. J., Parkington, H. C., Smyth, I. M. & Sviridov, D., 4 Mar 2020, In: EMBO Reports. 21, 3, 19 p., e48692.Research output: Contribution to journal › Article › Research › peer-review
6 Citations (Scopus) -
A saturating mutagenesis CRISPR-cas9–mediated functional genomic screen identifies cis- And trans-regulatory elements of oct4 in murine ESCs
Canver, M. C., Tripathi, P., Bullen, M. J., Olshansky, M., Kumar, Y., Wong, L. H., Turner, S. J., Lessard, S., Pinello, L., Orkin, S. H. & Das, P. P., 20 Nov 2020, In: Journal of Biological Chemistry. 295, 47, p. 15797-15809 13 p.Research output: Contribution to journal › Article › Research › peer-review
Open Access1 Citation (Scopus) -
Reprogramming roadmap reveals route to human induced trophoblast stem cells
Liu, X., Ouyang, J. F., Rossello, F. J., Tan, J. P., Davidson, K. C., Valdes, D. S., Schröder, J., Sun, Y. B. Y., Chen, J., Knaupp, A. S., Sun, G., Chy, H. S., Huang, Z., Pflueger, J., Firas, J., Tano, V., Buckberry, S., Paynter, J. M., Larcombe, M. R., Poppe, D. & 19 others, , 1 Oct 2020, In: Nature. 586, p. 101-107 7 p.Research output: Contribution to journal › Article › Research › peer-review
36 Citations (Scopus) -
TINC— A Method to Dissect Regulatory Complexes at Single-Locus Resolution— Reveals an Extensive Protein Complex at the Nanog Promoter
Knaupp, A. S., Mohenska, M., Larcombe, M. R., Ford, E., Lim, S. M., Wong, K., Chen, J., Firas, J., Huang, C., Liu, X., Nguyen, T., Sun, Y. B. Y., Holmes, M. L., Tripathi, P., Pflueger, J., Rossello, F. J., Schröder, J., Davidson, K. C., Nefzger, C. M., Das, P. P. & 4 others, , 8 Dec 2020, In: Stem Cell Reports. 15, 6, p. 1246-1259 14 p.Research output: Contribution to journal › Article › Research › peer-review
Open Access4 Citations (Scopus)