VisRseq: R-based visual framework for analysis of sequencing data

Tekijä Younesy, Hamid, Möller, Torsten, Lorincz, Matthew C, Karimi, Mohammad M, Jones, Steven JM
Julkaisussa BMC Bioinformatics (2015)

ChAsE: chromatin analysis and exploration tool

Tekijä Younesy, Hamid, Nielsen, Cydney B., Lorincz, Matthew C., Jones, Steven J.M., Karimi, Mohammad M., Möller, Torsten
Julkaisussa Bioinformatics (2016)

H3S10ph broadly marks early-replicating domains in interphase ESCs and shows reciprocal antagonism with H3K9me2

Tekijä Chen, Carol C.L., Goyal, Preeti, Karimi, Mohammad M., Abildgaard, Marie H., Kimura, Hiroshi, Lorincz, Matthew C.
Julkaisussa Genome Res (2018)

Silencing of transposable elements may not be a major driver of regulatory evolution in primate iPSCs

Tekijä Ward, Michelle C, Zhao, Siming, Luo, Kaixuan, Pavlovic, Bryan J, Karimi, Mohammad M, Stephens, Matthew, Gilad, Yoav
Julkaisussa eLife (2018)

Development and application of an integrated allele-specific pipeline for methylomic and epigenomic analysis (MEA)

Tekijä Richard Albert, Julien, Koike, Tasuku, Younesy, Hamid, Thompson, Richard, Bogutz, Aaron B., Karimi, Mohammad M., Lorincz, Matthew C.
Julkaisussa BMC Genomics (2018)

hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells

Tekijä Thompson, Peter J., Dulberg, Vered, Moon, Kyung-Mee, Foster, Leonard J., Chen, Carol, Karimi, Mohammad M., Lorincz, Matthew C.
Julkaisussa PLoS Genet (2015)

Correction: hnRNP K Coordinates Transcriptional Silencing by SETDB1 in Embryonic Stem Cells

Tekijä Thompson, Peter J., Dulberg, Vered, Moon, Kyung-Mee, Foster, Leonard J., Chen, Carol, Karimi, Mohammad M., Lorincz, Matthew C.
Julkaisussa PLoS Genet (2016)

A novel isoform of IL-33 revealed by screening for transposable element promoted genes in human colorectal cancer

Tekijä Lock, Frances E., Babaian, Artem, Zhang, Ying, Gagnier, Liane, Kuah, Sabrina, Weberling, Antonia, Karimi, Mohammad M., Mager, Dixie L.
Julkaisussa PLoS One (2017)

Distinct roles of KAP1, HP1 and G9a/GLP in silencing of the two-cell-specific retrotransposon MERVL in mouse ES cells

Tekijä Maksakova, Irina A, Thompson, Peter J, Goyal, Preeti, Jones, Steven JM, Singh, Prim B, Karimi, Mohammad M, Lorincz, Matthew C
Julkaistu 2013

Surveillance of cohesin-supported chromosome structure controls meiotic progression

Tekijä Castellano-Pozo, Maikel, Pacheco, Sarai, Sioutas, Georgios, Jaso-Tamame, Angel Luis, Dore, Marian H., Karimi, Mohammad M., Martinez-Perez, Enrique
Julkaisussa Nat Commun (2020)

Setdb1 is required for germline development and silencing of H3K9me3-marked endogenous retroviruses in primordial germ cells

Tekijä Liu, Sheng, Brind’Amour, Julie, Karimi, Mohammad M., Shirane, Kenjiro, Bogutz, Aaron, Lefebvre, Louis, Sasaki, Hiroyuki, Shinkai, Yoichi, Lorincz, Matthew C.
Julkaistu 2014

Setdb1 is required for germline development and silencing of H3K9me3-marked endogenous retroviruses in primordial germ cells

Tekijä Liu, Sheng, Brind’Amour, Julie, Karimi, Mohammad M., Shirane, Kenjiro, Bogutz, Aaron, Lefebvre, Louis, Sasaki, Hiroyuki, Shinkai, Yoichi, Lorincz, Matthew C.
Julkaisussa Genes Dev (2015)

DNA methylation and SETDB1/H3K9me3 regulate predominantly distinct sets of genes, retroelements and chimaeric transcripts in mouse ES cells

Tekijä Karimi, Mohammad M., Goyal, Preeti, Maksakova, Irina A., Bilenky, Misha, Leung, Danny, Tang, Jie Xin, Shinkai, Yoichi, Mager, Dixie L., Jones, Steven, Hirst, Martin, Lorincz, Matthew C.
Julkaistu 2011

LTR retrotransposons transcribed in oocytes drive species-specific and heritable changes in DNA methylation

Tekijä Brind’Amour, Julie, Kobayashi, Hisato, Richard Albert, Julien, Shirane, Kenjiro, Sakashita, Akihiko, Kamio, Asuka, Bogutz, Aaron, Koike, Tasuku, Karimi, Mohammad M., Lefebvre, Louis, Kono, Tomohiro, Lorincz, Matthew C.
Julkaisussa Nat Commun (2018)

Retrotransposon-Induced Heterochromatin Spreading in the Mouse Revealed by Insertional Polymorphisms

Tekijä Rebollo, Rita, Karimi, Mohammad M., Bilenky, Misha, Gagnier, Liane, Miceli-Royer, Katharine, Zhang, Ying, Goyal, Preeti, Keane, Thomas M., Jones, Steven, Hirst, Martin, Lorincz, Matthew C., Mager, Dixie L.
Julkaistu 2011

Vitamin C induces Tet-dependent DNA demethylation in ESCs to promote a blastocyst-like state

Tekijä Blaschke, Kathryn, Ebata, Kevin T., Karimi, Mohammad M., Zepeda-Martínez, Jorge A., Goyal, Preeti, Mahapatra, Sahasransu, Tam, Angela, Laird, Diana J., Hirst, Martin, Rao, Anjana, Lorincz, Matthew C., Ramalho-Santos, Miguel
Julkaistu 2013

On the role of H3.3 in retroviral silencing

Tekijä Wolf, Gernot, Rebollo, Rita, Karimi, Mohammad M., Ewing, Adam D., Kamada, Rui, Wu, Warren, Wu, Brenda, Bachu, Mahesh, Ozato, Keiko, Faulkner, Geoffrey J., Mager, Dixie L., Lorincz, Matthew C., Macfarlan, Todd S.
Julkaisussa Nature (2017)

Distinct isoform of FABP7 revealed by screening for retroelement-activated genes in diffuse large B-cell lymphoma

Tekijä Lock, Frances E., Rebollo, Rita, Miceli-Royer, Katharine, Gagnier, Liane, Kuah, Sabrina, Babaian, Artem, Sistiaga-Poveda, Maialen, Lai, C. Benjamin, Nemirovsky, Oksana, Serrano, Isabel, Steidl, Christian, Karimi, Mohammad M., Mager, Dixie L.
Julkaistu 2014

Evolution of an Amniote-Specific Mechanism for Modulating Ubiquitin Signaling via Phosphoregulation of the E2 Enzyme UBE2D3

Tekijä Roman-Trufero, Monica, Ito, Constance M, Pedebos, Conrado, Magdalou, Indiana, Wang, Yi-Fang, Karimi, Mohammad M, Moyon, Benjamin, Webster, Zoe, di Gregorio, Aida, Azuara, Veronique, Khalid, Syma, Speck, Christian, Rodriguez, Tristan, Dillon, Niall
Julkaisussa Mol Biol Evol (2020)

Cell competition acts as a purifying selection to eliminate cells with mitochondrial defects during early mouse development

Tekijä Lima, Ana, Lubatti, Gabriele, Burgstaller, Jörg, Hu, Di, Green, Alistair P., Di Gregorio, Aida, Zawadzki, Tamzin, Pernaute, Barbara, Mahammadov, Elmir, Perez-Montero, Salvador, Dore, Marian, Sanchez, Juan Miguel, Bowling, Sarah, Sancho, Margarida, Kolbe, Thomas, Karimi, Mohammad M., Carling, David, Jones, Nick, Srinivas, Shankar, Scialdone, Antonio, Rodriguez, Tristan A.
Julkaisussa Nat Metab (2021)