Publications

Uckelmann M, Levina V, Taveneau C, Ng XH, Pandey VK, Martinez J, Mendiratta S, Houx J, Boudes M, Venugopal H, Trépout S, Zhang Q, Flanigan S, Li M, Sierecki E, Gambin Y, Das PP, Bell O, Marco AD, Davidovich C. Dynamic PRC1-CBX8 stabilizes a porous structure of chromatin condensates. Nature Structural & Molecular Biology 2025 Jan 15.

Healy E, Zhang Q, Gail EH, Agius SC, Sun G, Bullen M, Pandey V, Das PP, Polo JM, Davidovich C. The apparent loss of PRC2 chromatin occupancy as an artefact of RNA depletion. Cell Reports 2024 Feb 27;43(3):113858.

Mehravar M, Pandey VK, Olshansky M, Bansal D, Dent C, Hathiwala D, Zhang Z, Gandhi H, Fulcher A, Huang C, Price J, Arumugam S, Ceman S, Balasubramanian SK, Papas BN, Morgan M, Miska EA, Schittenhelm RB, Tripathi P and Das PP. MOV10 facilitates messenger RNA decay in an N6-methyladenosine (m6A) dependent manner to maintain the mouse embryonic stem cells state. https://www.biorxiv.org/content/10.1101/2021.08.11.456030v3

Tripathi P, Dakle P, Mehravar M, Pandey VK, Bullen MJ, Zhang Z, Hathiwala D, Kerenyi M, Woo A, Ghamari A, Cantor AB, Wong LH, Kim J, Glass K, Yuan GC, Pinello L, Orkin SH, Das PP. Histone demethylome map reveals combinatorial gene regulatory functions in embryonic stem cells.

https://www.biorxiv.org/content/10.1101/2020.08.27.269514v3

Udugama M, Vinod B, Chan FL, Hii L, Garvie A, Collas P, Kalitsis P, Steer D, Das PP, Tripathi P, Mann JR, Voon HPJ, Wong LH. Histone H3.3 phosphorylation promotes heterochromatin formation by inhibiting H3K9/K36 histone demethylase. Nucleic Acids Res. 2022 May 6; 50(8): 4500–4514.

Udugama M, Hii L, Garvie A, Cervini M, Vinod B, Chan FL, Das PP, Mann JR, Collas P, Voon HPJ and Wong LH. Mutations inhibiting KDM4B drive ALT activation in ATRX-mutated glioblastomas. Nature Communications. 2021. May 10;12(1):2584.

Knaupp AS, Mohenska M, Larcombe MR, Ford E, Lim SM, Wong K, Chen J, Firas J, Huang C, Liu X, Nguyen T, Sun YBY, Holmes ML, Tripathi P, Rossello FJ, Schröder J, Davidson KC, Nefzger CM, Das PP, Haigh JJ, Lister R, Schittenhelm RB and Polo JM. TINC - a method to dissect transcriptional complexes at single locus resolution - reveals novel Nanog regulators in mouse embryonic stem cells. Stem Cell Reports, 2020 Dec 8;15(6):1246-1259.

Canver MC, Tripathi P, Bullen MJ, Kumar Y, Olshansky M, Wong LH, Turner SJ, Lessard S, Pinello L, Orkin SH and Das PP. A saturation mutagenesis CRISPR-Cas9 mediated functional genomic screen identifies cis- and trans-regulatory elements of Oct4 in embryonic stem cells. Journal of Biological Chemistry (JBC). 2020 Sep29 (Editors' pick).

Liu X, Ouyang JF, Rossello FJ, Tan JP, Davidson KC, Valdes DS, Schröder J, Yang Sun YB, Chen J, Knaupp AS, Sun G, Chy HS, Huang Z, Pflueger J, Firas J, Tano V, Buckberry S, Paynter JM, Larcombe MR, Poppe D, Choo XY, O’Brien CM, Pastor WA, Chen D, Leichter AL, Naeem H, Tripathi P, Das PP, Grubman A, Powell DR, Laslett AL, David L, Nilsson SK, Clark AT, Lister R, Nefzger CM, Martelotto LG, Rackham OJL, Polo JM. Reprogramming of human fibroblasts reveals a route to induced trophoblast stem cells. Nature. 2020 Sep 16.

Ursino GM, Fu Y, Cottle DL, Mukhamedova N, Jones LK, Low H, Tham MS, Gan WJ, Mellett NA, Das PP, Weir JM, Ditiatkovski M, Fynch S, Thorn P, Thomas HE, Meikle PJ, Parkington HC, Smyth IM, Sviridov D. ABCA12 regulates insulin secretion from β-cells. EMBO Rep. 2020 Mar 4;21(3):e48692.

Seruggia D, Oti M, Tripathi P, Canver MC, LeBlanc L, Di Giammartino DC, Bullen MJ, Nefzger CM, Yang Sun YB, Farouni R, Polo JM, Pinello L, Apostolou E, Kim J, Orkin SH and Das PP. TAF5L and TAF6L maintain self-renewal of embryonic stem cells via the MYC regulatory network. Molecular Cell. 2019 Jun 20;74(6):1148-1163.

Voon HPJ, Udugama M, Lin W, Hii L, Law RHP, Steer DL, Das PP, Mann JR, Wong LH. Inhibition of a K9/K36 Demethylase by an H3.3 Point Mutation Found in Paediatric Glioblastoma. Nature Communications. 2018 Aug 7;9(1):3142.

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.

Beyaz S, Kim JH, Pinello L, Xifaras ME, Hu Y, Huang J, Kerenyi MA, Das PP, Barnitz RA, Herault A, Dogum R, Haining WN, Yilmaz O, Passegue E, Yuan GC, Orkin SH & Winau F. UTX controls lineage-specific epigenetic program of iNKT cells. Nature Immunology. 2017 Feb;18(2):184-195.

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 Nov;6(11):1237-1247.

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.

Kim PG, Nakano H, Das PP, Chen MJ, Rowe RG, Chou SS, Ross SJ, Sakamoto KM, Zon LI, Schlaeger TM, Orkin SH, Nakano A, Daley GQ. Flow-induced Protein Kinase A-CREB pathway acts via BMP signalling to promote HSC emergence. J Exp Med. 2015 May 4;212(5):633-48.

Maier VK, Feeney CM, Taylor JE, Creech AL, Qiao JW, Szanto, Das PP, Chevrier N, Cifuentes-Rojas C, Orkin SH, Carr SA, Jaffe 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.

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.

Guo G, Luc S, Marco E, Lin TW, Peng C, Kerenyi MA, Beyaz S, Kim W, Xu J, Das PP, Neff 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.

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. Mol Biol Cell. 2008 Oct;19(10):4383-92.

Das PP, Bagijn MP, Goldstein LD, Woolford JR, Lehrbach NJ, Sapetschnig A, Buhecha HR, Gilchrist MJ, Howe KL, Stark R, Matthews 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. (COVER).

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.

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.

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 and Development. 2007 Aug 15;21(16):1999-2004.

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.

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 Res. 2007 Feb 15;67(4):1424-9.