Mechanism for DPY30 and ASH2L intrinsically disordered regions to modulate the MLL/SET1 activity on chromatin

Structural basis for COMPASS recognition of an H2B-ubiquitinated nucleosome

(2020) Evan J Worden et al.   eLife

ResPRE: high-accuracy protein contact prediction by coupling precision matrix with deep residual neural networks

(2019) Yang Li et al.   BIOINFORMATICS

Specific inhibition of DPY30 activity by ASH2L-derived peptides suppresses blood cancer cell growth

(2019) Kushani K. Shah et al.   EXPERIMENTAL CELL RESEARCH

LOMETS2: improved meta-threading server for fold-recognition and structure-based function annotation for distant-homology proteins

(2019) Wei Zheng et al.   NUCLEIC ACIDS RESEARCH

Deep‐learning contact‐map guided protein structure prediction in CASP13

(2019) Wei Zheng et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Structural basis of nucleosome recognition and modification by MLL methyltransferases

(2019) Han Xue et al.   NATURE

The internal interaction in RBBP5 regulates assembly and activity of MLL1 methyltransferase complex

(2019) Jianming Han et al.   NUCLEIC ACIDS RESEARCH

Ensembling multiple raw coevolutionary features with deep residual neural networks for contact‐map prediction in CASP13

(2019) Yang Li et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Organization of Chromatin by Intrinsic and Regulated Phase Separation

(2019) Bryan A. Gibson et al.   CELL

I-TASSER gateway: A protein structure and function prediction server powered by XSEDE

(2019) Wei Zheng et al.   Future Generation Computer Systems-The International Journal of eScience

Real-time cryo-electron microscopy data preprocessing with Warp

(2019) Dimitry Tegunov et al.   NATURE METHODS

MLL1 Inhibition and Vitamin D Signaling Cooperate to Facilitate the Expanded Pluripotency State

(2019) Hui Zhang et al.   Cell Reports

Structural Basis of H2B Ubiquitination-Dependent H3K4 Methylation by COMPASS

(2019) Peter L. Hsu et al.   MOLECULAR CELL

Cryo-EM structure of the human MLL1 core complex bound to the nucleosome

(2019) Sang Ho Park et al.   Nature Communications

Histone H3 lysine 4 monomethylation modulates long-range chromatin interactions at enhancers

(2018) Jian Yan et al.   CELL RESEARCH

Targeted in situ genome-wide profiling with high efficiency for low cell numbers

(2018) Peter J Skene et al.   Nature Protocols

Real-space refinement in PHENIX for cryo-EM and crystallography

(2018) Pavel V. Afonine et al.   Acta Crystallographica Section D-Structural Biology

Modes of Interaction of KMT2 Histone H3 Lysine 4 Methyltransferase/COMPASS Complexes with Chromatin

(2018) Agnieszka Bochyńska et al.   Cells

Crystal Structure of the COMPASS H3K4 Methyltransferase Catalytic Module

(2018) Peter L. Hsu et al.   CELL

Structural Analysis of the Ash2L/Dpy-30 Complex Reveals a Heterogeneity in H3K4 Methylation

(2018) John Faissal Haddad et al.   STRUCTURE

New tools for automated high-resolution cryo-EM structure determination in RELION-3

(2018) Jasenko Zivanov et al.   eLife

MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy

(2017) Shawn Q Zheng et al.   NATURE METHODS

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination

(2017) Ali Punjani et al.   NATURE METHODS

Targeting human SET1/MLL family of proteins

(2017) Masoud Vedadi et al.   PROTEIN SCIENCE

An efficient targeted nuclease strategy for high-resolution mapping of DNA binding sites

(2017) Peter J Skene et al.   eLife

Intrinsic protein disorder in histone lysine methylation

(2016) Tamas Lazar et al.   Biology Direct

Dynamic Histone Acetylation of H3K4me3 Nucleosome RegulatesMCL1Pre-mRNA Splicing

(2016) Dilshad H. Khan et al.   JOURNAL OF CELLULAR PHYSIOLOGY

Dpy30 is critical for maintaining the identity and function of adult hematopoietic stem cells

(2016) Zhenhua Yang et al.   JOURNAL OF EXPERIMENTAL MEDICINE

Low expression of ASH2L protein correlates with a favorable outcome in acute myeloid leukemia

(2016) Jill S. Butler et al.   LEUKEMIA & LYMPHOMA

Structural basis for activity regulation of MLL family methyltransferases

(2016) Yanjing Li et al.   NATURE

deepTools2: a next generation web server for deep-sequencing data analysis

(2016) Fidel Ramírez et al.   NUCLEIC ACIDS RESEARCH

CTCF-Mediated Human 3D Genome Architecture Reveals Chromatin Topology for Transcription

(2015) Zhonghui Tang et al.   CELL

Unique Role of the WD-40 Repeat Protein 5 (WDR5) Subunit within the Mixed Lineage Leukemia 3 (MLL3) Histone Methyltransferase Complex

(2015) Stephen A. Shinsky et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

CTFFIND4: Fast and accurate defocus estimation from electron micrographs

(2015) Alexis Rohou et al.   JOURNAL OF STRUCTURAL BIOLOGY

Interaction with WDR5 Promotes Target Gene Recognition and Tumorigenesis by MYC

(2015) Lance R. Thomas et al.   MOLECULAR CELL

Intrinsically disordered proteins in cellular signalling and regulation

(2015) Peter E. Wright et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

One-pot refolding of core histones from bacterial inclusion bodies allows rapid reconstitution of histone octamer

(2015) Young-Tae Lee et al.   PROTEIN EXPRESSION AND PURIFICATION

Evolving Catalytic Properties of the MLL Family SET Domain

(2015) Ying Zhang et al.   STRUCTURE

Advanced bone age in a girl with Wiedemann-Steiner syndrome and an exonic deletion inKMT2A(MLL)

(2014) Bryce A. Mendelsohn et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Intrinsically Disordered Proteins and Intrinsically Disordered Protein Regions

(2014) Christopher J. Oldfield et al.   Annual Review of Biochemistry

The DPY30 subunit in SET1/MLL complexes regulates the proliferation and differentiation of hematopoietic progenitor cells

(2014) Z. Yang et al.   BLOOD

De Novo variants in the KMT2A (MLL) gene causing atypical Wiedemann-Steiner syndrome in two unrelated individuals identified by clinical exome sequencing

(2014) Samuel P Strom et al.   BMC Medical Genetics

Classification of Intrinsically Disordered Regions and Proteins

(2014) Robin van der Lee et al.   CHEMICAL REVIEWS

Targeting MLL1 H3K4 Methyltransferase Activity in Mixed-Lineage Leukemia

(2014) Fang Cao et al.   MOLECULAR CELL

The interaction of MYC with the trithorax protein ASH2L promotes gene transcription by regulating H3K27 modification

(2014) A. Ullius et al.   NUCLEIC ACIDS RESEARCH

Ash2L enables P53-dependent apoptosis by favoring stable transcription pre-initiation complex formation on its pro-apoptotic target promoters

(2014) S K Mungamuri et al.   ONCOGENE

Molecular Basis for DPY-30 Association to COMPASS-like and NURF Complexes

(2014) Véronique Tremblay et al.   STRUCTURE

SET1 and p300 Act Synergistically, through Coupled Histone Modifications, in Transcriptional Activation by p53

(2013) Zhanyun Tang et al.   CELL

H3K4me3 Interactions with TAF3 Regulate Preinitiation Complex Assembly and Selective Gene Activation

(2013) Shannon M. Lauberth et al.   CELL

ASH2L Regulates Ubiquitylation Signaling to MLL: trans-Regulation of H3 K4 Methylation in Higher Eukaryotes

(2013) Lipeng Wu et al.   MOLECULAR CELL

Modification of Enhancer Chromatin: What, How, and Why?

(2013) Eliezer Calo et al.   MOLECULAR CELL

De Novo Mutations in MLL Cause Wiedemann-Steiner Syndrome

(2012) Wendy D. Jones et al.   AMERICAN JOURNAL OF HUMAN GENETICS

Structure of the SPRY domain of human Ash2L and its interactions with RbBP5 and DPY30

(2012) Yong Chen et al.   CELL RESEARCH

NIH Image to ImageJ: 25 years of image analysis

(2012) Caroline A Schneider et al.   NATURE METHODS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Spectrum of MLL2 (ALR) mutations in 110 cases of Kabuki syndrome

(2011) Mark C. Hannibal et al.   AMERICAN JOURNAL OF MEDICAL GENETICS PART A

Role for Dpy-30 in ES Cell-Fate Specification by Regulation of H3K4 Methylation within Bivalent Domains

(2011) Hao Jiang et al.   CELL

Regulation of chromatin by histone modifications

(2011) Andrew J Bannister et al.   CELL RESEARCH

Crystal structure of the N-terminal region of human Ash2L shows a winged-helix motif involved in DNA binding

(2011) Yong Chen et al.   EMBO REPORTS

Charge-based Interaction Conserved within Histone H3 Lysine 4 (H3K4) Methyltransferase Complexes Is Needed for Protein Stability, Histone Methylation, and Gene Expression

(2011) Douglas P. Mersman et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A systematic mutagenesis-driven strategy for site-resolved NMR studies of supramolecular assemblies

(2011) Carlos Amero et al.   JOURNAL OF BIOMOLECULAR NMR

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

(2011) Kevin C. Wang et al.   NATURE

Mutation spectrum of MLL2 in a cohort of kabuki syndrome patients

(2011) Lucia Micale et al.   Orphanet Journal of Rare Diseases

Atomic-Level Protein Structure Refinement Using Fragment-Guided Molecular Dynamics Conformation Sampling

(2011) Jian Zhang et al.   STRUCTURE

How significant is a protein structure similarity with TM-score = 0.5?

(2010) Jinrui Xu et al.   BIOINFORMATICS

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Mixed lineage leukemia: a structure-function perspective of the MLL1 protein

(2010) Michael S. Cosgrove et al.   FEBS Journal

MLL2 mutation spectrum in 45 patients with Kabuki syndrome

(2010) Aimée D. C. Paulussen et al.   HUMAN MUTATION

Exome sequencing identifies MLL2 mutations as a cause of Kabuki syndrome

(2010) Sarah B Ng et al.   NATURE GENETICS

I-TASSER: a unified platform for automated protein structure and function prediction

(2010) Ambrish Roy et al.   Nature Protocols

An Ash2L/RbBP5 Heterodimer Stimulates the MLL1 Methyltransferase Activity through Coordinated Substrate Interactions with the MLL1 SET Domain

(2010) Fang Cao et al.   PLoS One

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

CTCF: Master Weaver of the Genome

(2009) Jennifer E. Phillips et al.   CELL

H3K4 dimethylation in hepatocellular carcinoma is rare compared with other hepatobiliary and gastrointestinal carcinomas and correlates with expression of the methylase Ash2 and the demethylase LSD1

(2009) Christian Magerl et al.   HUMAN PATHOLOGY

On the Mechanism of Multiple Lysine Methylation by the Human Mixed Lineage Leukemia Protein-1 (MLL1) Core Complex

(2009) Anamika Patel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

A Conserved Interaction between the SDI Domain of Bre2 and the Dpy-30 Domain of Sdc1 Is Required for Histone Methylation and Gene Expression

(2009) Paul F. South et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

I-TASSER server for protein 3D structure prediction

(2008) Yang Zhang   BMC BIOINFORMATICS

The Human Trithorax Protein hASH2 Functions as an Oncoprotein

(2008) J. Luscher-Firzlaff et al.   CANCER RESEARCH

A Conserved Arginine-containing Motif Crucial for the Assembly and Enzymatic Activity of the Mixed Lineage Leukemia Protein-1 Core Complex

(2008) Anamika Patel et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

The role of disorder in interaction networks: a structural analysis

(2008) Philip M Kim et al.   Molecular Systems Biology

Model-based Analysis of ChIP-Seq (MACS)

(2008) Yong Zhang et al.   GENOME BIOLOGY