Mohammad Mahdi Karimi
Mohammad Mahdi Karimi
Senior Lecturer and Group Leader in Bioinformatics at King's College London
Verified email at kcl.ac.uk - Homepage
Title
Cited by
Cited by
Year
Vitamin C induces Tet-dependent DNA demethylation and a blastocyst-like state in ES cells
K Blaschke, KT Ebata, MM Karimi, JA Zepeda-Martínez, P Goyal, ...
Nature 500 (7461), 222-226, 2013
5792013
DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements, and chimeric transcripts in mESCs
MM Karimi, P Goyal, IA Maksakova, M Bilenky, D Leung, JX Tang, ...
Cell stem cell 8 (6), 676-687, 2011
3192011
An ultra-low-input native ChIP-seq protocol for genome-wide profiling of rare cell populations
J Brind’Amour, S Liu, M Hudson, C Chen, MM Karimi, MC Lorincz
Nature communications 6 (1), 1-8, 2015
1912015
Setdb1 is required for germline development and silencing of H3K9me3-marked endogenous retroviruses in primordial germ cells
S Liu, J Brind’Amour, MM Karimi, K Shirane, A Bogutz, L Lefebvre, ...
Genes & development 28 (18), 2041-2055, 2014
1282014
Retrotransposon-induced heterochromatin spreading in the mouse revealed by insertional polymorphisms
R Rebollo, MM Karimi, M Bilenky, L Gagnier, K Miceli-Royer, Y Zhang, ...
PLoS Genet 7 (9), e1002301, 2011
1132011
Distinct roles of KAP1, HP1 and G9a/GLP in silencing of the two-cell-specific retrotransposon MERVL in mouse ES cells
IA Maksakova, PJ Thompson, P Goyal, SJM Jones, PB Singh, MM Karimi, ...
Epigenetics & chromatin 6 (1), 15, 2013
952013
hnRNP K coordinates transcriptional silencing by SETDB1 in embryonic stem cells
PJ Thompson, V Dulberg, KM Moon, LJ Foster, C Chen, MM Karimi, ...
PLoS genet 11 (1), e1004933, 2015
522015
Activation of Endogenous Retroviruses in Dnmt1−/− ESCs Involves Disruption of SETDB1-Mediated Repression by NP95 Binding to Hemimethylated DNA
J Sharif, TA Endo, M Nakayama, MM Karimi, M Shimada, K Katsuyama, ...
Cell Stem Cell 19 (1), 81-94, 2016
492016
Distinct isoform of FABP7 revealed by screening for retroelement-activated genes in diffuse large B-cell lymphoma
FE Lock, R Rebollo, K Miceli-Royer, L Gagnier, S Kuah, A Babaian, ...
Proceedings of the National Academy of Sciences 111 (34), E3534-E3543, 2014
422014
Onco-exaptation of an endogenous retroviral LTR drives IRF5 expression in Hodgkin lymphoma
A Babaian, MT Romanish, L Gagnier, LY Kuo, MM Karimi, C Steidl, ...
Oncogene 35 (19), 2542-2546, 2016
402016
VisRseq: R-based visual framework for analysis of sequencing data
H Younesy, T Möller, MC Lorincz, MM Karimi, SJM Jones
BMC bioinformatics 16 (S11), S2, 2015
292015
Minimum Cost Homomorphisms to reflexive digraphs
A Gupta, P Hell, M Karimi, A Rafiey
Latin American Symposium on Theoretical Informatics, 182-193, 2008
272008
LTR retrotransposons transcribed in oocytes drive species-specific and heritable changes in DNA methylation
J Brind’Amour, H Kobayashi, JR Albert, K Shirane, A Sakashita, A Kamio, ...
Nature communications 9 (1), 1-14, 2018
262018
Inhibition of methyltransferase Setd7 allows the in vitro expansion of myogenic stem cells with improved therapeutic potential
RN Judson, M Quarta, MJ Oudhoff, H Soliman, L Yi, CK Chang, G Loi, ...
Cell Stem Cell 22 (2), 177-190. e7, 2018
232018
ALEA: a toolbox for allele-specific epigenomics analysis
H Younesy, T Möller, A Heravi-Moussavi, JB Cheng, JF Costello, ...
Bioinformatics 30 (8), 1172-1174, 2014
212014
ChAsE: chromatin analysis and exploration tool
H Younesy, CB Nielsen, MC Lorincz, SJM Jones, MM Karimi, T Möller
Bioinformatics 32 (21), 3324-3326, 2016
172016
An interactive analysis and exploration tool for epigenomic data
H Younesy, CB Nielsen, T Möller, O Alder, R Cullum, MC Lorincz, ...
Computer Graphics Forum 32 (3pt1), 91-100, 2013
162013
H3S10ph broadly marks early-replicating domains in interphase ESCs and shows reciprocal antagonism with H3K9me2
CCL Chen, P Goyal, MM Karimi, MH Abildgaard, H Kimura, MC Lorincz
Genome research 28 (1), 37-51, 2018
152018
Hepatocyte nuclear factor 4‐alpha is essential for the active epigenetic state at enhancers in mouse liver
A Thakur, JCH Wong, EY Wang, J Lotto, D Kim, JC Cheng, M Mingay, ...
Hepatology 70 (4), 1360-1376, 2019
122019
LIONS: analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq
A Babaian, IR Thompson, J Lever, L Gagnier, MM Karimi, DL Mager
Bioinformatics 35 (19), 3839-3841, 2019
92019
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