Works in Epigenetics & Chromatin, 2023, Vol 16, Issue 1

Results: 51

Knockout tales: the versatile roles of histone H3.3 in development and disease.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00512-8

By:

Klein, Rachel H.;
Knoepfler, Paul S.

Publication type:

Article

The application of epiphenotyping approaches to DNA methylation array studies of the human placenta.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00507-5

By:

Khan, A.;
Inkster, A. M.;
Peñaherrera, M. S.;
King, S.;
Kildea, S.;
Oberlander, T. F.;
Olson, D. M.;
Vaillancourt, C.;
Brain, U.;
Beraldo, E. O.;
Beristain, A. G.;
Clifton, V. L.;
Del Gobbo, G. F.;
Lam, W. L.;
Metz, G. A. S.;
Ng, J. W. Y.;
Price, E. M.;
Schuetz, J. M.;
Yuan, V.;
Portales-Casamar, É.

Publication type:

Article

Knockout tales: the versatile roles of histone H3.3 in development and disease.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00512-8

By:

Klein, Rachel H.;
Knoepfler, Paul S.

Publication type:

Article

Chromatin balances cell redox and energy homeostasis.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00520-8

By:

Suganuma, Tamaki;
Workman, Jerry L.

Publication type:

Article

Nucleophosmin 1 cooperates with the methyltransferase DOT1L to preserve peri-nucleolar heterochromatin organization by regulating H3K27me3 levels and DNA repeats expression.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00511-9

By:

Izzo, Annalisa;
Akol, Ipek;
Villarreal, Alejandro;
Lebel, Shannon;
Garcia-Miralles, Marta;
Cheffer, Arquimedes;
Bovio, Patrick;
Heidrich, Stefanie;
Vogel, Tanja

Publication type:

Article

O-GlcNAcylation: the sweet side of epigenetics.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00523-5

By:

Dupas, Thomas;
Lauzier, Benjamin;
McGraw, Serge

Publication type:

Article

Folate deficiency reduced aberrant level of DOT1L-mediated histone H3K79 methylation causes disruptive SHH gene expression involved in neural tube defects.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00517-3

By:

Li, Xue;
Pei, Pei;
Shen, Jinying;
Yu, Juan;
Wang, Fang;
Wang, Lei;
Liu, Changyun;
Wang, Shan

Publication type:

Article

Expanding the list of sequence-agnostic enzymes for chromatin conformation capture assays with S1 nuclease.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00524-4

By:

Maria, Gridina;
Andrey, Popov;
Artem, Shadskiy;
Nikita, Torgunakov;
Andrey, Kechin;
Evgeny, Khrapov;
Oxana, Ryzhkova;
Maxim, Filipenko;
Veniamin, Fishman

Publication type:

Article

The functions of SET domain bifurcated histone lysine methyltransferase 1 (SETDB1) in biological process and disease.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00519-1

By:

Luo, Hanshen;
Wu, Xingliang;
Zhu, Xue-Hai;
Yi, Xin;
Du, Dunfeng;
Jiang, Ding-Sheng

Publication type:

Article

Histone crotonylation of peripheral blood mononuclear cells is a potential biomarker for diagnosis of colorectal cancer.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00509-3

By:

Hou, Jia-Yi;
Li, Ning;
Wang, Jie;
Gao, Li-Juan;
Chang, Jia-Song;
Cao, Ji-Min

Publication type:

Article

Differential usage of DNA modifications in neurons, astrocytes, and microglia.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00522-6

By:

Tooley, Kyla B.;
Chucair-Elliott, Ana J.;
Ocañas, Sarah R.;
Machalinski, Adeline H.;
Pham, Kevin D.;
Hoolehan, Walker;
Kulpa, Adam M.;
Stanford, David R.;
Freeman, Willard M.

Publication type:

Article

Estimating genome-wide DNA methylation heterogeneity with methylation patterns.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00521-7

By:

Lin, Pei-Yu;
Chang, Ya-Ting;
Huang, Yu-Chun;
Chen, Pao-Yang

Publication type:

Article

Expression analysis suggests that DNMT3L is required for oocyte de novo DNA methylation only in Muridae and Cricetidae rodents.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00518-2

By:

Behluli, Lirik;
Fontanilla, Alyssa M.;
Andessner-Angleitner, Laura;
Tolar, Nikolas;
Molina, Julia M.;
Gahurova, Lenka

Publication type:

Article

EphrinA5 regulates cell motility by modulating Snhg15/DNA triplex-dependent targeting of DNMT1 to the Ncam1 promoter.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00516-4

By:

Yildiz, Can Bora;
Kundu, Tathagata;
Gehrmann, Julia;
Koesling, Jannis;
Ravaei, Amin;
Wolff, Philip;
Kraft, Florian;
Maié, Tiago;
Jakovcevski, Mira;
Pensold, Daniel;
Zimmermann, Olav;
Rossetti, Giulia;
Costa, Ivan G.;
Zimmer-Bensch, Geraldine

Publication type:

Article

Development of super-specific epigenome editing by targeted allele-specific DNA methylation.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00515-5

By:

Rajaram, Nivethika;
Kouroukli, Alexandra G.;
Bens, Susanne;
Bashtrykov, Pavel;
Jeltsch, Albert

Publication type:

Article

Vitamin C activates young LINE-1 elements in mouse embryonic stem cells via H3K9me3 demethylation.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00514-6

By:

Cheng, Kevin C. L.;
Frost, Jennifer M.;
Sánchez-Luque, Francisco J.;
García-Canãdas, Marta;
Taylor, Darren;
Yang, Wan R.;
Irayanar, Branavy;
Sampath, Swetha;
Patani, Hemalvi;
Agger, Karl;
Helin, Kristian;
Ficz, Gabriella;
Burns, Kathleen H.;
Ewing, Adam;
García-Pérez, José L.;
Branco, Miguel R.

Publication type:

Article

Analyses of POL30 (PCNA) reveal positional effects in transient repression or bi-modal active/silent state at the sub-telomeres of S. cerevisiae.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00513-7

By:

Sauty, Safia Mahabub;
Yankulov, Krassimir

Publication type:

Article

The impact of spatial correlation on methylation entropy with application to mouse brain methylome.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00479-6

By:

Wu, Xiaowei;
Choi, Joung Min

Publication type:

Article

Elucidating disease-associated mechanisms triggered by pollutants via the epigenetic landscape using large-scale ChIP-Seq data.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00510-w

By:

Zou, Zhaonan;
Yoshimura, Yuka;
Yamanishi, Yoshihiro;
Oki, Shinya

Publication type:

Article

Strong interactions between highly dynamic lamina-associated domains and the nuclear envelope stabilize the 3D architecture of Drosophila interphase chromatin.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00492-9

By:

Tolokh, Igor S.;
Kinney, Nicholas Allen;
Sharakhov, Igor V.;
Onufriev, Alexey V.

Publication type:

Article

Altered cfDNA fragmentation profile in hypomethylated regions as diagnostic markers in breast cancer.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00508-4

By:

Wang, Jun;
Niu, Yanqin;
Yang, Ming;
Shu, Lirong;
Wang, Hongxian;
Wu, Xiaoqian;
He, Yaqin;
Chen, Peng;
Zhong, Guocheng;
Tang, Zhixiong;
Zhang, Shasha;
Guo, Qianwen;
Wang, Yun;
Yu, Li;
Gou, Deming

Publication type:

Article

Co-effects of m6A and chromatin accessibility dynamics in the regulation of cardiomyocyte differentiation.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00506-6

By:

Liu, Xue-Hong;
Liu, Zhun;
Ren, Ze-Hui;
Chen, Hong-Xuan;
Zhang, Ying;
Zhang, Zhang;
Cao, Nan;
Luo, Guan-Zheng

Publication type:

Article

Promoter hypermethylation of neural-related genes is compatible with stemness in solid cancers.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00505-7

By:

Idris, Musa;
Coussement, Louis;
Alves, Maria M.;
De Meyer, Tim;
Melotte, Veerle

Publication type:

Article

Alterations in the hepatocyte epigenetic landscape in steatosis.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00504-8

By:

Maji, Ranjan Kumar;
Czepukojc, Beate;
Scherer, Michael;
Tierling, Sascha;
Cadenas, Cristina;
Gianmoena, Kathrin;
Gasparoni, Nina;
Nordström, Karl;
Gasparoni, Gilles;
Laggai, Stephan;
Yang, Xinyi;
Sinha, Anupam;
Ebert, Peter;
Falk-Paulsen, Maren;
Kinkley, Sarah;
Hoppstädter, Jessica;
Chung, Ho-Ryun;
Rosenstiel, Philip;
Hengstler, Jan G.;
Walter, Jörn

Publication type:

Article

Etiology of super-enhancer reprogramming and activation in cancer.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00502-w

By:

Zhou, Royce W.;
Parsons, Ramon E.

Publication type:

Article

The role of Dmnt1 during spermatogenesis of the insect Oncopeltus fasciatus.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00496-5

By:

Cunningham, Christopher B.;
Shelby, Emily A.;
McKinney, Elizabeth C.;
Schmitz, Robert J.;
Moore, Allen J.;
Moore, Patricia J.

Publication type:

Article

Live-cell imaging of chromatin contacts opens a new window into chromatin dynamics.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00503-9

By:

van Staalduinen, Jente;
van Staveren, Thomas;
Grosveld, Frank;
Wendt, Kerstin S.

Publication type:

Article

PARP-dependent and NAT10-independent acetylation of N4-cytidine in RNA appears in UV-damaged chromatin.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00501-x

By:

Svobodová Kovaříková, Alena;
Stixová, Lenka;
Kovařík, Aleš;
Bártová, Eva

Publication type:

Article

Histone modification analysis reveals common regulators of gene expression in liver and blood stage merozoites of Plasmodium parasites.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00500-y

By:

Reers, Ashley B.;
Bautista, Rodriel;
McLellan, James;
Morales, Beatriz;
Garza, Rolando;
Bol, Sebastiaan;
Hanson, Kirsten K.;
Bunnik, Evelien M.

Publication type:

Article

Assignment of the somatic A/B compartments to chromatin domains in giant transcriptionally active lampbrush chromosomes.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00499-2

By:

Krasikova, Alla;
Kulikova, Tatiana;
Rodriguez Ramos, Juan Sebastian;
Maslova, Antonina

Publication type:

Article

Var∣Decrypt: a novel and user-friendly tool to explore and prioritize variants in whole-exome sequencing data.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00497-4

By:

Salma, Mohammad;
Alaterre, Elina;
Moreaux, Jérôme;
Soler, Eric

Publication type:

Article

CpG DNA methylation changes during epididymal sperm maturation in bulls.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00495-6

By:

Capra, Emanuele;
Turri, F.;
Lazzari, B.;
Biffani, S.;
Lange Consiglio, A.;
Ajmone Marsan, P.;
Stella, A.;
Pizzi, F.

Publication type:

Article

Correction: Characterizing chromatin interactions of regulatory elements and nucleosome positions, using Hi‑C, Micro‑C, and promoter capture Micro‑C.

Published in:

2023

By:

Lee, Beoung Hun;
Wu, Zexun;
Rhie, Suhn K.

Publication type:

Correction Notice

Premature ovarian insufficiency is associated with global alterations in the regulatory landscape and gene expression in balanced X-autosome translocations.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00493-8

By:

Di-Battista, Adriana;
Favilla, Bianca Pereira;
Zamariolli, Malú;
Nunes, Natália;
Defelicibus, Alexandre;
Armelin-Correa, Lucia;
da Silva, Israel Tojal;
Reymond, Alexandre;
Moyses-Oliveira, Mariana;
Melaragno, Maria Isabel

Publication type:

Article

The transgenic IG-DMR sequence of the mouse Dlk1-Dio3 domain acquired imprinted DNA methylation during the post-fertilization period.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00482-x

By:

Matsuzaki, Hitomi;
Sugihara, Shokichi;
Tanimoto, Keiji

Publication type:

Article

The pattern of histone H3 epigenetic posttranslational modifications is regulated by the VRK1 chromatin kinase.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00494-7

By:

Monte-Serrano, Eva;
Morejón-García, Patricia;
Campillo-Marcos, Ignacio;
Campos-Díaz, Aurora;
Navarro-Carrasco, Elena;
Lazo, Pedro A.

Publication type:

Article

Loss of CpG island immunity to DNA methylation induced by mutation.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00488-5

By:

Horsthemke, Bernhard;
Bird, Adrian

Publication type:

Article

The MMP-2 histone H3 N-terminal tail protease is selectively targeted to the transcription start sites of active genes.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00491-w

By:

Weekley, Benjamin H.;
Rice, Judd C.

Publication type:

Article

Caf1 regulates the histone methyltransferase activity of Ash1 by sensing unmodified histone H3.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00487-6

By:

Yoon, Eojin;
Song, Ji-Joon

Publication type:

Article

Partial erosion on under-methylated regions and chromatin reprogramming contribute to oncogene activation in IDH mutant gliomas.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00490-x

By:

Wang, Xinyu;
Dai, Lijun;
Liu, Yang;
Li, Chenghao;
Fan, Dandan;
Zhou, Yue;
Li, Pengcheng;
Kong, Qingran;
Su, Jianzhong

Publication type:

Article

Caf1 regulates the histone methyltransferase activity of Ash1 by sensing unmodified histone H3.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00487-6

By:

Yoon, Eojin;
Song, Ji-Joon

Publication type:

Article

An optimized approach for multiplexing single-nuclear ATAC-seq using oligonucleotide-conjugated antibodies.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00486-7

By:

Bera, Betelehem Solomon;
Thompson, Taylor V.;
Sosa, Eric;
Nomaru, Hiroko;
Reynolds, David;
Dubin, Robert A.;
Maqbool, Shahina B.;
Zheng, Deyou;
Morrow, Bernice E.;
Greally, John M.;
Suzuki, Masako

Publication type:

Article

Epigenetic modifier alpha-ketoglutarate modulates aberrant gene body methylation and hydroxymethylation marks in diabetic heart.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00489-4

By:

Dhat, Rohini;
Mongad, Dattatray;
Raji, Sivarupa;
Arkat, Silpa;
Mahapatra, Nitish R.;
Singhal, Nishant;
Sitasawad, Sandhya L.

Publication type:

Article

Ovulatory signal-triggered chromatin remodeling in ovarian granulosa cells by HDAC2 phosphorylation activation-mediated histone deacetylation.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00485-8

By:

Jin, Jiamin;
Ren, Peipei;
Li, Xiang;
Zhang, Yinyi;
Yang, Weijie;
Ma, Yerong;
Lai, Mengru;
Yu, Chao;
Zhang, Songying;
Zhang, Yin-Li

Publication type:

Article

Multilevel interrogation of H3.3 reveals a primordial role in transcription regulation.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00484-9

By:

Nabeel-Shah, Syed;
Garg, Jyoti;
Ashraf, Kanwal;
Jeyapala, Renu;
Lee, Hyunmin;
Petrova, Alexandra;
Burns, James D.;
Pu, Shuye;
Zhang, Zhaolei;
Greenblatt, Jack F.;
Pearlman, Ronald E.;
Lambert, Jean-Philippe;
Fillingham, Jeffrey

Publication type:

Article

PCGF6/MAX/KDM5D facilitates MAZ/CDK4 axis expression and pRCC progression by hypomethylation of the DNA promoter.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00483-w

By:

Zhu, Meng;
Zhang, Ruo-Nan;
Zhang, Hong;
Qu, Chang-bao;
Zhang, Xiao-chong;
Ren, Li-Xin;
Yang, Zhan;
Gu, Jun-Fei

Publication type:

Article

Proximity labeling reveals a new in vivo network of interactors for the histone demethylase KDM5.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00481-y

By:

Yheskel, Matanel;
Sidoli, Simone;
Secombe, Julie

Publication type:

Article

The SAGA histone acetyltransferase module targets SMC5/6 to specific genes.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00480-z

By:

Mahrik, L.;
Stefanovie, B.;
Maresova, A.;
Princova, J.;
Kolesar, P.;
Lelkes, E.;
Faux, C.;
Helmlinger, D.;
Prevorovsky, M.;
Palecek, J. J.

Publication type:

Article

Dynamic changes in whole genome DNA methylation, chromatin and gene expression during mouse lens differentiation.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-023-00478-7

By:

Chang, William;
Zhao, Yilin;
Rayêe, Danielle;
Xie, Qing;
Suzuki, Masako;
Zheng, Deyou;
Cvekl, Ales

Publication type:

Article

Phthalates impact on the epigenetic factors contributed specifically by the father at fertilization.

Published in:

Epigenetics & Chromatin, 2023, v. 16, n. 1, p. 1, doi. 10.1186/s13072-022-00475-2

By:

Swanson, G. M.;
Nassan, F. L.;
Ford, J. B.;
Hauser, R.;
Pilsner, J. R.;
Krawetz, S. A.

Publication type:

Article