Dr Pradeepa Madapura
Senior Lecturer
Blizard Institute
Queen Mary University of London
Queen Mary University of London
Research
Neurodevelopmental disorders, brain organoids, In vitro brain development, neuroepigenetics, functional genomics
Interests
We use human stem cell-derived cerebral organoid models to investigate the mechanism through which mutations in epigenetic regulators contribute to neurodevelopmental and cardiovascular disorders.Publications
2025
Mammalian H4K16ac regulates the spatiotemporal order of genome replication rather than gene expressionNucleic Acids Research, Oxford University Press (Oup) vol. 53 (18)
23-09-2025
2024
Author Correction: PSIP1/LEDGF reduces R-loops at transcription sites to maintain genome integrityJayakumar S, Patel M, Boulet F, Aziz H, Brooke GN, Tummala H, Pradeepa MM
Nature Communications, Springer Nature vol. 15 (1)
07-06-2024
Nucleosome reorganisation in breast cancer tissuesJacob DR, Guiblet WM, Mamayusupova H, Shtumpf M, Ciuta I, Ruje L, Gretton S, Bikova M et al.
Clinical Epigenetics, Springer Nature vol. 16 (1)
01-04-2024
PSIP1/LEDGF reduces R-loops at transcription sites to maintain genome integrityJayakumar S, Patel M, Boulet F, Aziz H, Brooke GN, Tummala H, Pradeepa MM
Nature Communications, Springer Nature vol. 15 (1)
08-01-2024
2023
H4K16ac activates the transcription of transposable elements and contributes to their cis-regulatory functionPal D, Patel M, Boulet F, Sundarraj J, Grant OA, Branco MR, Basu S, Santos SDM et al.
Nature Structural & Molecular Biology, Springer Nature vol. 30 (7), 935-947.
12-06-2023
Regulatory de novo mutations underlying intellectual disabilityDe Vas MG, Boulet F, Joshi SS, Garstang MG, Khan TN, Atla G, Parry D, Moore D et al.
Life Science Alliance, Life Science Alliance vol. 6 (5)
28-02-2023
2022
Genetic variation at mouse and human ribosomal DNA influences associated epigenetic statesGenome Biology, Springer Nature vol. 23 (1)
14-02-2022
2021
H3K36me3 and PSIP1/LEDGF associate with several DNA repair proteins, suggesting their role in efficient DNA repair at actively transcribing lociSundarraj J, Taylor GCA, von Kriegsheim A, Pradeepa MM
Wellcome Open Research, F1000research vol. 2
14-09-2021
H3K36me3 and PSIP1/LEDGF associate with several DNA repair proteins, suggesting their role in efficient DNA repair at actively transcribing lociSundarraj J, Taylor GCA, von Kriegsheim A, Pradeepa MM
Wellcome Open Research, F1000research vol. 2
16-08-2021
Cornelia de Lange syndrome-associated mutations cause a DNA damage signalling and repair defectOlley G, Pradeepa MM, Grimes GR, Piquet S, Polo SE, FitzPatrick DR, Bickmore WA, Boumendil C
Nature Communications, Springer Nature vol. 12 (1)
25-05-2021
2019
Publisher Correction: BRD4 interacts with NIPBL and BRD4 is mutated in a Cornelia de Lange–like syndromeOlley G, Ansari M, Bengani H, Grimes GR, Rhodes J, von Kriegsheim A, Blatnik A, Stewart FJ et al.
Nature Genetics, Springer Nature vol. 51 (7), 1192-1192.
03-06-2019
2018
An Enhancer-Derived RNA Muscles In to Regulate Myogenin In trans.Garstang MG, Pradeepa MM
Mol Cell vol. 71 (1), 3-5.
05-07-2018
Publisher Correction: BRD4 interacts with NIPBL and BRD4 is mutated in a Cornelia de Lange–like syndromeOlley G, Ansari M, Bengani H, Grimes GR, Rhodes J, von Kriegsheim A, Blatnik A, Stewart FJ et al.
Nature Genetics, Springer Nature vol. 50 (5), 767-767.
12-02-2018
BRD4 interacts with NIPBL and BRD4 is mutated in a Cornelia de Lange–like syndromeOlley G, Ansari M, Bengani H, Grimes GR, Rhodes J, von Kriegsheim A, Blatnik A, Stewart FJ et al.
Nature Genetics, Springer Nature vol. 50 (3), 329-332.
29-01-2018
2017
Convergent origination of a Drosophila-like dosage compensation mechanism in a reptile lineageMarin R, Cortez D, Lamanna F, Pradeepa MM, Leushkin E, Julien P, Liechti A, Halbert J et al.
Genome Research, Cold Spring Harbor Laboratory vol. 27 (12), 1974-1987.
13-11-2017
Proteomic analysis of H3K36me3 and PSIP1/p75 (LEDGF) complexes reveal their wider role in DNA repairPradeepa MM, Taylor GCA, von Kriegsheim A
Wellcome Open Research, F1000research vol. 2
13-10-2017
Proteomic analysis of H3K36me3 and PSIP1/p75 (LEDGF) complexes reveal their wider role in DNA repairPradeepa MM, Taylor GCA, von Kriegsheim A
Wellcome Open Research, F1000research vol. 2
12-09-2017
Psip1/p52 regulates posterior Hoxa genes through activation of lncRNA HottipPradeepa MM, McKenna F, Taylor GCA, Bengani H, Grimes GR, Wood AJ, Bhatia S, Bickmore WA
Plos Genetics, Public Library of Science (Plos) vol. 13 (4)
06-04-2017
Causal role of histone acetylations in enhancer function.Pradeepa MM
Transcription vol. 8 (1), 40-47.
01-01-2017
2016
Native chromatin immunoprecipitation of histone marks to Identify enhancer statusMarulasiddappa P, Pradeepa MM, Kumar Y, Grimes G, Illingworth R
Protocol Exchange, Springer Nature
05-05-2016
Histone H3 globular domain acetylation identifies a new class of enhancersPradeepa MM, Grimes GR, Kumar Y, Olley G, Taylor GCA, Schneider R, Bickmore WA
Nature Genetics vol. 48 (6), 681-686.
18-04-2016
An Interferon Regulated MicroRNA Provides Broad Cell-Intrinsic Antiviral Immunity through Multihit Host-Directed Targeting of the Sterol PathwayRobertson KA, Hsieh WY, Forster T, Blanc M, Lu H, Crick PJ, Yutuc E, Watterson S et al.
Plos Biology, Public Library of Science (Plos) vol. 14 (3)
03-03-2016
2015
The E3 ubiquitin ligase activity of RING1B is not essential for early mouse developmentIllingworth RS, Moffat M, Mann AR, Read D, Hunter CJ, Pradeepa MM, Adams IR, Bickmore WA
Genes & Development, Cold Spring Harbor Laboratory vol. 29 (18), 1897-1902.
15-09-2015
Mapping of Post-translational Modifications of Transition Proteins, TP1 and TP2, and Identification of Protein Arginine Methyltransferase 4 and Lysine Methyltransferase 7 as Methyltransferase for TP2*Gupta N, Madapura MP, Bhat UA, Rao MRS
Journal of Biological Chemistry, Elsevier vol. 290 (19), 12101-12122.
28-03-2015
2014
Psip1/Ledgf p75 restrains Hox gene expression by recruiting both trithorax and polycomb group proteinsPradeepa MM, Grimes GR, Taylor GCA, Sutherland HG, Bickmore WA
Nucleic Acids Research, Oxford University Press (Oup) vol. 42 (14), 9021-9032.
23-07-2014
2013
H4K16 acetylation marks active genes and enhancers of embryonic stem cells, but does not alter chromatin compactionTaylor GCA, Eskeland R, Hekimoglu-Balkan B, Pradeepa MM, Bickmore WA
Genome Research, Cold Spring Harbor Laboratory vol. 23 (12), 2053-2065.
29-08-2013
2012
Psip1/Ledgf p52 Binds Methylated Histone H3K36 and Splicing Factors and Contributes to the Regulation of Alternative SplicingPradeepa MM, Sutherland HG, Ule J, Grimes GR, Bickmore WA
Plos Genetics, Public Library of Science (Plos) vol. 8 (5)
01-01-2012
2009
Acetylation of Transition Protein 2 (TP2) by KAT3B (p300) Alters Its DNA Condensation Property and Interaction with Putative Histone Chaperone NPM3*Pradeepa MM, Nikhil G, Kishore AH, Bharath GN, Rao MRS
Journal of Biological Chemistry, Elsevier vol. 284 (43), 29956-29967.
26-08-2009
Spatiotemporal Organization of AT- and GC-rich DNA and Their Association With Transition Proteins TP1 and TP2 in Rat Condensing SpermatidsKolthur-Seetharam U, Pradeepa MM, Gupta N, Rao MRS
Journal of Histochemistry & Cytochemistry, Sage Publications vol. 57 (10), 951-962.
08-06-2009
2008
Involvement of Importin-4 in the Transport of Transition Protein 2 into the Spermatid NucleusPradeepa MM, Manjunatha S, Sathish V
Molecular and Cellular Biology, Taylor & Francis vol. 28 (13), 4331-4341.
01-07-2008
2007
Chromatin remodeling during mammalian spermatogenesis: role of testis specific histone variants and transition proteins.Pradeepa MM, Rao MRS
Society of Reproduction and Fertility vol. 63, 1-10.
01-01-2007
Emerging concepts of chromatin remodeling in modulating genome functionsDhar S, Pradeepa MM, Rao MRS
Proceedings of The National Academy of Sciences India Section B-Biological Sciences vol. 77, 61-71.
01-01-2007
Early Prediction of Preeclampsia Based on Transposable Elements signature in cell-free RNAIn Biorxiv
Non-canonical enhancers control gene expression and cell fate in human pluripotent stem cellsIn Biorxiv
De novo variants in population constrained fetal brain enhancers and intellectual disabilityIn Biorxiv
Genetic variation at mouse and human ribosomal DNA influences associated epigenetic statesIn Biorxiv
Cornelia-de Lange syndrome-associated mutations cause a DNA damage signalling and repair defectIn Biorxiv
Psip1/p52 regulates distal Hoxa genes through activation of lncRNA HottipIn Biorxiv
H4K16ac activates the transcription of transposable elements and contributes to their cis-regulatory functionPal D, Patel M, Boulet F, Sundarraj J, Grant OA, Branco MR, Basu S, Santos S et al.
In Biorxiv
Regulatory de novo mutations underlying intellectual disabilityIn Medrxiv
PSIP1/LEDGF reduces R-loops at transcription sites to maintain genome integrityJayakumar S, Patel M, Boulet F, Aziz H, Brooke GN, Tummala H, Pradeepa MM
In Biorxiv
Nucleosome reorganisation in breast cancer tissuesJacob DR, Guiblet WM, Mamayusupova H, Shtumpf M, Ciuta I, Ruje L, Gretton S, Bikova M et al.
In Biorxiv
Non-coding mutations at enhancer clusters contribute to pancreatic ductal adenocarcinomaPatel MB, Maniati E, Atanur SS, Pal D, Rio-Machin A, Heward J, Kocher HM, Fitzgibbon J et al.
In Biorxiv
Grants
Establishment of trophoblast cell differentiation system to study preeclampsiaPradeepa Madapura
£74,499 Barts and the London Charity
11-06-2025 - 10-06-2026
Role of BRD4 mutations in neurodevelopmentPradeepa Madapura
£759,321 MRC Medical Research Council
01-11-2023 - 31-10-2026
Role of BRD4 mutations in neurodevelopmentPradeepa Madapura and Nicolae Radu Zabet
£205,822 Barts and the London Charity
01-04-2023 - 31-03-2027
Role of PSIP1 in prostate cancer development and drug resistance - MSCA IF 2019Pradeepa Madapura
£179,947 EU Commission - Horizon 2020
05-01-2021 - 18-01-2023
Deciphering the role of the MOF complex and H4K16ac in the regulation of neuronal enhancersPradeepa Madapura
£821,014 Medical Research Council
01-02-2020 - 31-10-2023
Effect of mutations in genes encoding acetyltransferases in neurodevelopmental disordersPradeepa Madapura
£40,000 Barts and the London Charity
01-09-2019 - 31-08-2021