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Conserved Helix-Flanking Prolines Modulate Intrinsically Disordered Protein
Michael D Crabtree, Wade Borcherds, Anusha Poosapati, Sarah L Shammas, Gary W Daughdrill, Jane Clarke
Mar 26, 2018
Appropriate integration of cellular signals requires a delicate balance of ligand-target binding affinities. Increasing the level of residual structure in intrinsically disordered proteins (IDPs), which are overrepresented in...
Amino Acid Sequence Animals Binding Sites Cloning Molecular Conserved Sequence Escherichia coli Gene Expression Histone-Lysine N-Methyltransferase Humans Intrinsically Disordered Proteins Membrane Proteins Mice Models Molecular Mutation Myeloid-Lymphoid Leukemia Protein Phosphoproteins Proline Protein Binding Protein Conformation alpha-Helical Protein Folding Protein Interaction Domains and Motifs Recombinant Proteins Sequence Alignment Sequence Homology Amino Acid Tumor Suppressor Protein p53
Integrative Molecular Characterization of Malignant Pleural Mesothelioma.
Julija Hmeljak, Francisco Sanchez-Vega, Katherine A Hoadley, Juliann Shih, Chip Stewart, David Heiman, Patrick Tarpey, Ludmila Danilova, Esther Drill, Ewan A Gibb, Reanne Bowlby, Rupa Kanchi, Hatice U Osmanbeyoglu, Yoshitaka Sekido, Jumpei Takeshita, Yulia Newton, Kiley Graim, Manaswi Gupta, Carl M Gay, Lixia Diao, David L Gibbs, Vesteinn Thorsson, Lisa Iype, Havish Kantheti, David T Severson, Gloria Ravegnini, Patrice Desmeules, Achim A Jungbluth, William D Travis, Sanja Dacic, Lucian R Chirieac, Françoise Galateau-Sallé, Junya Fujimoto, Aliya N Husain, Henrique C Silveira, Valerie W Rusch, Robert C Rintoul, Harvey Pass, Hedy Kindler, Marjorie G Zauderer, David J Kwiatkowski, Raphael Bueno, Anne S Tsao, Jenette Creaney, Tara Lichtenberg, Kristen Leraas, Jay Bowen, TCGA Research Network, Ina Felau, Jean Claude Zenklusen, Rehan Akbani, Andrew D Cherniack, Lauren A Byers, Michael S Noble, Jonathan A Fletcher, A Gordon Robertson, Ronglai Shen, Hiroyuki Aburatani, Bruce W Robinson, Peter Campbell, Marc Ladanyi
Dec 17, 2018
Malignant pleural mesothelioma (MPM) is a highly lethal cancer of the lining of the chest cavity. To expand our understanding of MPM, we conducted a comprehensive integrated genomic study, including the most detailed analysis of...
Epigenetic activation of meiotic recombination near Arabidopsis thaliana centromeres via loss of H3K9me2 and non-CG DNA methylation.
Charles J Underwood, Kyuha Choi, Christophe Lambing, Xiaohui Zhao, Heïdi Serra, Filipe Borges, Joe Simorowski, Evan Ernst, Yannick Jacob, Ian R Henderson, Robert A Martienssen
Jun 04, 2018
Eukaryotic centromeres contain the kinetochore, which connects chromosomes to the spindle allowing segregation. During meiosis, centromeres are suppressed for inter-homolog crossover, as recombination in these regions can cause...
Activin/nodal signaling and NANOG orchestrate human embryonic stem cell fate decisions by controlling the H3K4me3 chromatin mark.
Alessandro Bertero, Pedro Madrigal, Antonella Galli, Nina C Hubner, Inmaculada Moreno, Deborah Burks, Stephanie Brown, Roger A Pedersen, Daniel Gaffney, Sasha Mendjan, Siim Pauklin, Ludovic Vallier
May 21, 2015
Activin/Nodal DPY30 H3K4me3 NANOG SMAD2/3 hESCs Activins Animals Cell Differentiation Cells Cultured Chromatin Embryo Mammalian Embryonic Stem Cells Epigenesis Genetic Histone Methyltransferases Histone-Lysine N-Methyltransferase Histones Homeodomain Proteins Humans Mice Nanog Homeobox Protein Nodal Protein Signal Transduction Smad2 Protein Smad3 Protein
Mutations in Mll2, an H3K4 methyltransferase, result in insulin resistance and impaired glucose tolerance in mice.
Michelle Goldsworthy, Nathan L Absalom, David Schröter, Helen C Matthews, Debora Bogani, Lee Moir, Anna Long, Christopher Church, Alison Hugill, Quentin M Anstee, Rob Goldin, Mark Thursz, Florian Hollfelder, Roger D Cox
Jan 22, 2021
We employed a random mutagenesis approach to identify novel monogenic determinants of type 2 diabetes. Here we show that haplo-insufficiency of the histone methyltransferase myeloid-lineage leukemia (Mll2/Wbp7) gene causes type...
KAT7 is a genetic vulnerability of acute myeloid leukemias driven by MLL rearrangements.
Yan Zi Au, Muxin Gu, Etienne De Braekeleer, Malgorzata Gozdecka, Demetrios Aspris, Yusuke Tarumoto, Jonathan Cooper, Jason Yu, Swee Hoe Ong, Xi Chen, Konstantinos Tzelepis, Brian JP Huntly, George Vassiliou, Kosuke Yusa
Aug 14, 2020
Histone acetyltransferases (HATs) catalyze the transfer of an acetyl group from acetyl-CoA to lysine residues of histones and play a central role in transcriptional regulation in diverse biological processes. Dysregulation of...
Apoptosis Biomarkers Tumor Cell Differentiation Cell Line Tumor Disease Management Epigenesis Genetic Gene Knockout Techniques Gene Rearrangement Genetic Association Studies Genetic Predisposition to Disease Histone Acetyltransferases Histone-Lysine N-Methyltransferase Histones Humans Leukemia Myeloid Acute Myeloid Cells Myeloid-Lymphoid Leukemia Protein Oncogene Proteins Fusion Promoter Regions Genetic Protein Binding
Differential expression of selected histone modifier genes in human solid cancers.
Hilal Ozdağ, Andrew E Teschendorff, Ahmed Ashour Ahmed, Sarah J Hyland, Cherie Blenkiron, Linda Bobrow, Abhi Veerakumarasivam, Glynn Burtt, Tanya Subkhankulova, Mark J Arends, V Peter Collins, David Bowtell, Tony Kouzarides, James D Brenton, Carlos Caldas
Jun 14, 2011
Breast Neoplasms Carcinoma Cell Transformation Neoplastic Cluster Analysis Colorectal Neoplasms DNA Complementary DNA Neoplasm Female Gene Expression Regulation Enzymologic Gene Expression Regulation Neoplastic Histone Acetyltransferases Histone Code Histone Deacetylases Histone Methyltransferases Histone-Lysine N-Methyltransferase Histones Humans Linear Models Lung Neoplasms Male Neoplasm Proteins Neoplasms Ovarian Neoplasms Pancreatic Neoplasms Polymerase Chain Reaction Polymorphism Single-Stranded Conformational Protein Methyltransferases Protein Processing Post-Translational
Evolution of the recombination regulator PRDM9 in minke whales.
Mutations in the histone methyltransferase gene KMT2B cause complex early-onset dystonia.
Esther Meyer, Keren J Carss, Julia Rankin, John ME Nichols, Detelina Grozeva, Agnel P Joseph, Niccolo E Mencacci, Apostolos Papandreou, Joanne Ng, Serena Barral, Adeline Ngoh, Hilla Ben-Pazi, Michel A Willemsen, David Arkadir, Angela Barnicoat, Hagai Bergman, Sanjay Bhate, Amber Boys, Niklas Darin, Nicola Foulds, Nicholas Gutowski, Alison Hills, Henry Houlden, Jane A Hurst, Zvi Israel, Margaret Kaminska, Patricia Limousin, Daniel Lumsden, Shane McKee, Shibalik Misra, Shekeeb S Mohammed, Vasiliki Nakou, Joost Nicolai, Magnus Nilsson, Hardev Pall, Kathryn J Peall, Gregory B Peters, Prab Prabhakar, Miriam S Reuter, Patrick Rump, Reeval Segel, Margje Sinnema, Martin Smith, Peter Turnpenny, Susan M White, Dagmar Wieczorek, Sarah Wiethoff, Brian T Wilson, Gidon Winter, Christopher Wragg, Simon Pope, Simon JH Heales, Deborah Morrogh, UK10K consortium, Deciphering Developmental Disorders Study, NIHR BioResource Rare Diseases Consortium, Alan Pittman, Lucinda J Carr, Belen Perez-Dueñas, Jean-Pierre Lin, Andre Reis, William A Gahl, Camilo Toro, Kailash P Bhatia, Nicholas W Wood, Erik-Jan Kamsteeg, Wui K Chong, Paul Gissen, Maya Topf, Russell C Dale, Jonathan R Chubb, F Lucy Raymond, Manju A Kurian
Aug 29, 2019
Physical and functional interaction between SET1/COMPASS complex component CFP-1 and a Sin3S HDAC complex in C. elegans.
Flore Beurton, Przemyslaw Stempor, Matthieu Caron, Alex Appert, Yan Dong, Ron A-J Chen, David Cluet, Yohann Couté, Marion Herbette, Ni Huang, Hélène Polveche, Martin Spichty, Cécile Bedet, Julie Ahringer, Francesca Palladino
Oct 28, 2019
The CFP1 CXXC zinc finger protein targets the SET1/COMPASS complex to non-methylated CpG rich promoters to implement tri-methylation of histone H3 Lys4 (H3K4me3). Although H3K4me3 is widely associated with gene expression, the...
Genomics and clinical correlates of renal cell carcinoma.
PURPOSE: Clear cell, papillary cell, and chromophobe renal cell carcinomas (RCCs) have now been well characterised thanks to large collaborative projects such as The Cancer Genome Atlas (TCGA). Not only has knowledge of the...
evolution Genomics mutations Prognosis renal cancer Therapy Carcinoma Renal Cell DNA-Binding Proteins Genomics Histone-Lysine N-Methyltransferase Humans Kidney Neoplasms Mutation Nuclear Proteins PTEN Phosphohydrolase Telomerase Transcription Factors Tumor Suppressor Protein p53 Tumor Suppressor Proteins Ubiquitin Thiolesterase Von Hippel-Lindau Tumor Suppressor Protein
Multi-omics analysis defines highly refractory RAS burdened immature subgroup of infant acute lymphoblastic leukemia.
Tomoya Isobe, Masatoshi Takagi, Aiko Sato-Otsubo, Akira Nishimura, Genta Nagae, Chika Yamagishi, Moe Tamura, Yosuke Tanaka, Shuhei Asada, Reina Takeda, Akiho Tsuchiya, Xiaonan Wang, Kenichi Yoshida, Yasuhito Nannya, Hiroo Ueno, Ryo Akazawa, Itaru Kato, Takashi Mikami, Kentaro Watanabe, Masahiro Sekiguchi, Masafumi Seki, Shunsuke Kimura, Mitsuteru Hiwatari, Motohiro Kato, Shiro Fukuda, Kenji Tatsuno, Shuichi Tsutsumi, Akinori Kanai, Toshiya Inaba, Yusuke Shiozawa, Yuichi Shiraishi, Kenichi Chiba, Hiroko Tanaka, Rishi S Kotecha, Mark N Cruickshank, Fumihiko Ishikawa, Tomohiro Morio, Mariko Eguchi, Takao Deguchi, Nobutaka Kiyokawa, Yuki Arakawa, Katsuyoshi Koh, Yuki Aoki, Takashi Ishihara, Daisuke Tomizawa, Takako Miyamura, Eiichi Ishii, Shuki Mizutani, Nicola K Wilson, Berthold Göttgens, Satoru Miyano, Toshio Kitamura, Susumu Goyama, Akihiko Yokoyama, Hiroyuki Aburatani, Seishi Ogawa, Junko Takita
Sep 30, 2022
Development and validation of a comprehensive genomic diagnostic tool for myeloid malignancies.
Thomas McKerrell, Thaidy Moreno, Hannes Ponstingl, Niccolo Bolli, João ML Dias, German Tischler, Vincenza Colonna, Bridget Manasse, Anthony Bench, David Bloxham, Bram Herman, Danielle Fletcher, Naomi Park, Michael A Quail, Nicla Manes, Clare Hodkinson, Joanna Baxter, Jorge Sierra, Theodora Foukaneli, Alan J Warren, Jianxiang Chi, Paul Costeas, Roland Rad, Brian Huntly, Carolyn Grove, Zemin Ning, Chris Tyler-Smith, Ignacio Varela, Mike Scott, Josep Nomdedeu, Ville Mustonen, George S Vassiliou
Mar 18, 2019
The diagnosis of hematologic malignancies relies on multidisciplinary workflows involving morphology, flow cytometry, cytogenetic, and molecular genetic analyses. Advances in cancer genomics have identified numerous recurrent...
Carrier Proteins DNA (Cytosine-5-)-Methyltransferases DNA Methyltransferase 3A Female Formins Genomics Hematologic Neoplasms Histone-Lysine N-Methyltransferase Humans Leukemia Myeloid Male Mutation Myelodysplastic Syndromes Myeloid-Lymphoid Leukemia Protein Oncogene Proteins Fusion fms-Like Tyrosine Kinase 3
G9a inhibition potentiates the anti-tumour activity of DNA double-strand break inducing agents by impairing DNA repair independent of p53 status.
Cancer epigenetics Chemical probes Chemotherapeutics Non-homologous end joining UNC0638 Antibiotics Antineoplastic Antineoplastic Combined Chemotherapy Protocols Apoptosis Cell Proliferation DNA Breaks Double-Stranded DNA End-Joining Repair Dose-Response Relationship Drug Enzyme Inhibitors Etoposide HCT116 Cells Histocompatibility Antigens Histone-Lysine N-Methyltransferase Humans Neoplasms Phleomycins Quinazolines RNA Interference Signal Transduction Time Factors Topoisomerase II Inhibitors Transfection Tumor Suppressor Protein p53
Chromatin dynamics and the role of G9a in gene regulation and enhancer silencing during early mouse development.
Jan J Zylicz, Sabine Dietmann, Ufuk Günesdogan, Jamie A Hackett, Delphine Cougot, Caroline Lee, M Azim Surani
Nov 24, 2015
Chromosomes developmental biology Epiblast epigenetics Genes histone MOUSE post-implantation primed pluripotency Stem Cells Animals Chromatin Embryonic Development Enhancer of Zeste Homolog 2 Protein Gene Expression Regulation Developmental Histone-Lysine N-Methyltransferase Histones Methylation Mice Polycomb Repressive Complex 2 Protein Processing Post-Translational
Dysregulation of haematopoietic stem cell regulatory programs in acute myeloid leukaemia.
Haematopoietic stem cells (HSC) are situated at the apex of the haematopoietic differentiation hierarchy, ensuring the life-long supply of mature haematopoietic cells and forming a reservoir to replenish the haematopoietic...
Repressive Chromatin in Caenorhabditis elegans
Chromatin is organized and compacted in the nucleus through the association of histones and other proteins, which together control genomic activity. Two broad types of chromatin can be distinguished: euchromatin, which is...
C. elegans H3K27me H3K9me WormBook Chromatin Heterochromatin histone methylation Animals Caenorhabditis elegans Cellular Reprogramming Chromatin Gene Expression Regulation Genome Heterochromatin Histone Code Histone-Lysine N-Methyltransferase Histones Loss of Function Mutation Methylation Nuclear Lamina Phenotype RNA Interference Repetitive Sequences Nucleic Acid
PRDM9 losses in vertebrates are coupled to those of paralogs ZCWPW1 and ZCWPW2.
Maria Izabel A Cavassim, Zachary Baker, Carla Hoge, Mikkel H Schierup, Molly Schumer, Molly Przeworski
Mar 29, 2022
In most mammals and likely throughout vertebrates, the gene PRDM9 specifies the locations of meiotic double strand breaks; in mice and humans at least, it also aids in their repair. For both roles, many of the molecular partners...
Remodelling of a polypyrimidine tract-binding protein complex during apoptosis activates cellular IRESs.
HA King, LC Cobbold, X Pichon, T Pöyry, LA Wilson, H Booden, R Jukes-Jones, K Cain, KS Lilley, M Bushell, AE Willis
Mar 11, 2020
Post-transcriptional control of gene expression is mediated by the interaction of RNA-binding proteins with their cognate mRNAs that specifically regulate their stability, localization and translation. mRNA-binding proteins are...
Apoptosis Cell Nucleus Cyclin T DNA-Binding Proteins HeLa Cells Histone-Lysine N-Methyltransferase Humans MCF-7 Cells Nuclear Matrix-Associated Proteins Octamer Transcription Factors PTB-Associated Splicing Factor Polypyrimidine Tract-Binding Protein RNA Interference RNA Messenger RNA Small Interfering RNA-Binding Proteins TNF-Related Apoptosis-Inducing Ligand Y-Box-Binding Protein 1
Smyd2 conformational changes in response to p53 binding
Smyd2 lysine methyltransferase regulates monomethylation of histone and nonhistone lysine residues using S-adenosylmethionine cofactor as the methyl donor. The nonhistone interactors include several tumorigenic targets...
Hyperactivation of HUSH complex function by Charcot-Marie-Tooth disease mutation in MORC2
IA Tchasovnikarova, RT Timms, CH Douse, RC Roberts, G Dougan, RE Kingston, Y Modis, PJ Lehner
Jul 13, 2017
Adenosine Triphosphatases CRISPR-Cas Systems Charcot-Marie-Tooth disease Chromatin Assembly and Disassembly Epigenetic Repression Gene Silencing HeLa Cells Heterochromatin Histone Code Histone-Lysine N-Methyltransferase Histones Humans Lysine Methylation Multiprotein Complexes Mutation Missense Neurons Protein Domains Protein Interaction Mapping Protein Methyltransferases Protein Processing Post-Translational Transcription Factors Transgenes
Prevalence and architecture of de novo mutations in developmental disorders.
Deciphering Developmental Disorders Study
Feb 07, 2020
The genomes of individuals with severe, undiagnosed developmental disorders are enriched in damaging de novo mutations (DNMs) in developmentally important genes. Here we have sequenced the exomes of 4,293 families containing...
Adolescent Adult Autoantigens CDC2 Protein Kinase Casein Kinase II Child Chromosomal Proteins Non-Histone Cohort Studies DEAD-box RNA Helicases DNA-Binding Proteins Developmental Disabilities Exome Female Heredity Histone-Lysine N-Methyltransferase Homeodomain Proteins Humans Male Mi-2 Nucleosome Remodeling and Deacetylase Complex Middle Aged Mutation Myeloid-Lymphoid Leukemia Protein Nerve Tissue Proteins Parents Phenotype prevalence Protein Phosphatase 2C Repressor Proteins Sequence Analysis DNA Sex Characteristics Transcription Factors Young Adult ras GTPase-Activating Proteins
Epigenetic Regulation of Vascular Smooth Muscle Cells by Histone H3 Lysine 9 Dimethylation Attenuates Target Gene-Induction by Inflammatory Signaling.
Jennifer L Harman, Lina Dobnikar, Joel Chappell, Benjamin G Stokell, Amanda Dalby, Kirsty Foote, Alison Finigan, Paula Freire-Pritchett, Annabel L Taylor, Matthew D Worssam, Ralitsa R Madsen, Elena Loche, Anna Uryga, Martin R Bennett, Helle F Jørgensen
Aug 08, 2019
arteries Chromatin Immunoprecipitation Cytokines epigenetics histone Inflammation Animals Coronary Artery Disease Demethylation Epigenesis Genetic Gene Expression Histone-Lysine N-Methyltransferase Histones Humans Inflammation Interleukin-6 Male Matrix Metalloproteinases Mice Inbred C57BL Mitogen-Activated Protein Kinases Muscle Smooth Vascular Myocytes Smooth Muscle NF-kappa B Transcription Factor AP-1
A map of human PRDM9 binding provides evidence for novel behaviors of PRDM9 and other zinc-finger proteins in meiosis.
Nicolas Altemose, Nudrat Noor, Emmanuelle Bitoun, Afidalina Tumian, Michael Imbeault, J Ross Chapman, A Radu Aricescu, Simon R Myers
Sep 05, 2018
PRDM9 binding localizes almost all meiotic recombination sites in humans and mice. However, most PRDM9-bound loci do not become recombination hotspots. To explore factors that affect binding and subsequent recombination...
Setd1b, encoding a histone 3 lysine 4 methyltransferase, is a maternal effect gene required for the oogenic gene expression program.
David Brici, Qinyu Zhang, Susanne Reinhardt, Andreas Dahl, Hella Hartmann, Kerstin Schmidt, Neha Goveas, Jiahao Huang, Lenka Gahurova, Gavin Kelsey, Konstantinos Anastassiadis, A Francis Stewart, Andrea Kranz
Jun 24, 2019
Germ cell development involves major reprogramming of the epigenome to prime the zygote for totipotency. Histone 3 lysine 4 (H3K4) methylations are universal epigenetic marks mediated in mammals by six H3K4 methyltransferases...
histone methylation MOUSE Oogenesis Pre-implantation development Transcriptional regulation Animals Blastocyst Epigenesis Genetic Female Gene Expression Profiling Gene Expression Regulation Developmental Growth Differentiation Factor 9 Histone-Lysine N-Methyltransferase Male Maternal Inheritance Mice Mice Knockout Mice Transgenic Oocytes Oogenesis RNA Messenger Single-Cell Analysis Transcription Factors Zona Pellucida Zygote
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