Histone modifications

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Genomics (7613)
Unknown (6399)
Transcriptomics (2239)
Proteomics (1045)
Other (215)
Methylation profiling (191)
Metabolomics (11)
Genomic (3)
Multiomics (2)
Models (1)

Organisms

Homo sapiens (1911)
Mus musculus (1797)
Drosophila melanogaster (810)
Caenorhabditis elegans (428)
Arabidopsis thaliana (245)
Saccharomyces cerevisiae (153)
Schizosaccharomyces pombe (55)
Rattus norvegicus (49)
Oryza sativa (42)
Danio rerio (38)
Plasmodium falciparum (31)
Zea mays (20)
Xenopus laevis (18)
Gallus gallus (12)
Escherichia coli (11)
Fusarium fujikuroi (8)
Tetrahymena thermophila (8)
Oryza sativa Japonica Group (8)
Papio anubis (7)
Pan troglodytes (6)
Monodelphis domestica (6)
Camponotus floridanus (5)
Schmidtea mediterranea (3)
Plasmodium falciparum 3D7 (3)
Candida albicans (2)
Mus musculus domesticus x M. m. molossinus (2)
Aplysia californica (2)
Eucalyptus grandis (2)
Chamaelirium luteum (1)
Acropora palmata (1)

Organisms

Homo sapiens (1559)
Mus musculus (1515)
Arabidopsis thaliana (159)
Drosophila melanogaster (122)
Saccharomyces cerevisiae (88)
Caenorhabditis elegans (59)
Rattus norvegicus (42)
Oryza sativa (37)
Schizosaccharomyces pombe (35)
Danio rerio (28)
Gallus gallus (20)
Plasmodium falciparum (19)
Bos taurus (17)
Xenopus laevis (13)
Neurospora crassa (10)
Solanum lycopersicum (10)
Zea mays (9)
Xenopus tropicalis (8)
Brassica napus (7)
Toxoplasma gondii (7)
Triticum aestivum (6)
Sus scrofa (6)
Oryza sativa Japonica Group (6)
Fusarium fujikuroi (5)
Malus domestica (5)
Gossypium hirsutum (5)
Papio anubis (5)
Rhizopus microsporus (5)
Oryzias latipes (5)
Ovis aries (5)

Repository

ENA (4557)
geo (3710)
biostudies-arrayexpress (1934)
pride (892)
MassIVE (86)
EGA (55)
iProX (29)
jPOST (20)
PanoramaPublic (13)
LINCS (9)
MetaboLights (8)
dbGaP (3)
GNPS (3)
BioModels (1)
NODE (1)
PAXDB (1)

Tissue

Cell culture (231)
Blood (77)
Epithelial cell (48)
Permanent cell line cell (39)
Embryonic stem cell (36)
T cell (31)
Embryo (28)
Liver (25)
Brain (24)
Leaf (22)
Blood cell (19)
B cell (18)
Macrophage (16)
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Bone marrow (15)
HeLa cell (15)
Whole body (14)
Fibroblast (14)
Cell suspension culture (13)
Early embryonic cell (12)
Breast (11)
Testis (11)
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Hepatocyte (9)
Neutrophil (9)
Lung (8)
Heart (7)
Spleen (7)
Seedling (6)
Colorectum (1)

Disease

Disease free (81)
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Cervix carcinoma (16)
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Malignant neoplasm of ovary (7)
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Lymphoma (6)
Chronic myeloid leukemia (5)
Brain glioblastoma multiforme (4)
Chagas disease (4)
Multiple myeloma (4)
Colon cancer (4)
Normal (3)
Prostate cancer (3)
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Cervical cancer (3)
Glioblastoma (3)
Infiltrating ductal carcinoma (2)
Colorectal cancer (2)
Bone osteosarcoma (2)
Merkel cell carcinoma (2)
Head and neck cancer (2)
Hypertension (2)
Phyllodes tumor (1)
Burkitt's lymphoma (1)
Mild hyperglycemia, liver dysfunction, and renal glycosuria (1)
Prostate carcinoma (1)

Technology Type

Mass Spectrometry (892)
Shotgun proteomics (406)
Bottom-up proteomics (185)
Affinity purification coupled with mass spectrometry proteomics (163)
Data-dependent acquisition (101)
Top-down proteomics (76)
Gel-based experiment (67)
Data-independent acquisition (27)
SWATH MS (25)
Chemical cross-linking coupled with mass spectrometry proteomics (25)
SRM/MRM (19)
GCP (9)
Mass spectrometry (9)
Mass spectrometry (5)
All-ion fragmentation (5)
Mass spectrometry imaging (4)
Illumina HiSeq 2000 (3)
Mass spectrometry assay (3)
MSE (3)
DiaPASEF (2)
HDMSE (2)
NextSeq 500, ILLUMINA, Illumina HiSeq 2500 (1)
Affymetrix Axiom Genome-Wide ASI 1 Array (1)
Illumina HumanMethylation 450K (1)
Illumina 450k (1)
Illumina ChIP-Sequencing, Illumina MBD-Sequencing, Illumina beadarray, Illumina HiSeq 2500, Illumina MiSeq, Illumina Bisulfite-Sequencing (1)
Illumina HiSeq 2000, Illumina HiSeq 2500 (1)
Illumina Genome Analyzer IIx (1)
Illumina HiSeq 2000, ILLUMINA (1)
Proteogenomics (1)

Instrument Platform

Illumina HiSeq 2000 (33)
Illumina HiSeq 2500 (24)
NextSeq 500 (19)
Illumina NovaSeq 6000 (18)
Q Exactive (16)
Orbitrap Fusion Lumos (14)
NextSeq 550 (8)
Illumina HiSeq 4000 (8)
LTQ Orbitrap (8)
Illumina Genome Analyzer IIx (6)
LTQ Orbitrap Velos (6)
Illumina MiSeq (5)
Illumina Genome Analyzer II (4)
NextSeq 2000 (3)
Agilent LC-QToF G6546A (3)
Element AVITI (2)
AB SOLiD 5500 (2)
GenePix 4000B [Axon Instruments] (2)
Scanning hardware (2)
Vortex (2)
Illumina NovaSeq X (2)
Illumina HiSeq 1500 (2)
Deeptools, macs3 (1)
IEO HPC (1)
Covaris E220evolution (1)
GeneChip Scanner 3000 [Affymetrix] (1)
Axon- GenePix4000B (1)
Ion Torrent PGM (1)
None (1)
Illumina HiSeq 3000 (1)

Publication Date

2013 (806)
2025 (533)
2010 (520)
2026 (446)
2023 (430)
2024 (422)
2011 (409)
2022 (406)
2015 (368)
2012 (342)
2021 (336)
2014 (313)
2020 (255)
2016 (249)
2019 (237)
2018 (216)
2017 (186)
2009 (97)
2008 (56)
2007 (31)
2006 (15)
2005 (6)
2004 (1)

UNIPROT ID/AC

B6KR28_TOXGV (1)
V4Z2J5_TOXGV (1)
B9QI05_TOXGV (1)
A0A125YRL8_TOXGV (1)
B6KR90_TOXGV (1)
V4ZP24_TOXGV (1)
A0A0F7UUH3_TOXGV (1)
A0A0F7UXP4_TOXGV (1)
V4YSL5_TOXGV (1)
V4ZGI5_TOXGV (1)
B9PFU2_TOXGV (1)
B6KHC8_TOXGV (1)
B6KP08_TOXGV (1)
B9PH20_TOXGV (1)
A0A0F7UVN4_TOXGV (1)
V4YZX5_TOXGV (1)
V4ZIA1_TOXGV (1)
B6KFA7_TOXGV (1)
5811.TGME49_012150 (1)
A0A0F7UZR3_TOXGV (1)
B9PN16_TOXGV (1)
V5BD96_TOXGV (1)
B9QQB8_TOXGV (1)
A0A125YLF8_TOXGV (1)
5811.TGME49_072640 (1)
B9Q6X5_TOXGV (1)
B6KBN3_TOXGV (1)
B9QH48_TOXGV (1)
B6KP07_TOXGV (1)
B9PT75_TOXGV (1)

CHEBI ID

CHEBI:17858 (4)
CHEBI:30769 (3)
CHEBI:15741 (3)
CHEBI:16001 (2)
CHEBI:29042 (2)
CHEBI:16610 (2)
CHEBI:16467 (2)
CHEBI:17053 (2)
CHEBI:16015 (2)
CHEBI:16349 (2)
CHEBI:18107 (2)
CHEBI:15891 (2)
CHEBI:16927 (2)
CHEBI:16344 (2)
CHEBI:18012 (2)
CHEBI:16704 (2)
CHEBI:16335 (2)
CHEBI:16027 (2)
CHEBI:17345 (2)
CHEBI:16264 (2)
CHEBI:32816 (2)
CHEBI:6650 (2)
CHEBI:16737 (2)
CHEBI:16708 (2)
CHEBI:17284 (1)
CHEBI:125405 (1)
CHEBI:16034 (1)
CHEBI:37240 (1)
CHEBI:63632 (1)
CHEBI:27869 (1)

Metabolite Name

Creatinine (4)
L-Proline (3)
Taurine (3)
L-Arginine (3)
L-Phenylalanine (3)
L-Methionine (3)
L-Glutamine (3)
7-Aminomethyl-7-carbaguanine (2)
3-Hydroxymethylglutaric acid (2)
Pyridoxal 5'-phosphate (2)
Citicoline (2)
Phenylacetaldehyde (2)
D-Fructose (2)
Oxoglutaric acid (2)
L-aspartic acid (2)
Anserine (2)
Leucine (2)
Betaine (2)
Sphingosine (2)
Penbutolol (2)
Nicotinamide ribotide (2)
Diethanolamine (2)
5'-Methylthioadenosine (2)
Aspartame (2)
Succinic acid (2)
Adenosine 5'-monophosphate (2)
Fumaric acid (2)
Xanthosine (2)
Oleamide (2)
Sphinganine (2)

First Public Date

2025 (520)
2023 (491)
2024 (438)
2026 (408)
2014 (384)
2021 (327)
2022 (322)
2013 (296)
2020 (295)
2019 (281)
2017 (229)
2018 (216)
2015 (181)
2016 (167)
2012 (1)
2010 (1)

Modelling Approach

Differential equation model (1)

Lab affiliation

Departments of Chemical and Biological Engineering, Chemistry, and Molecular Biosciences, the Chemistry of Life Processes Institute, and the Proteomics Center of Excellence, Northwestern University, Evanston, Illinois 60208, United States (60)
EDyP (14)
European Institute of Oncology (11)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, United States (10)
European Institute of Oncology, Milan (7)
ProGenTomics, Laboratory of Pharmaceutical Biotechnology, Ghent University, B-9000 Ghent, Belgium (7)
European Institute of Oncology, Milan, Italy (6)
Head of the Curie Institute Mass Spectrometry Platform (6)
Cellzome, a GSK company (5)
Department of Medical Biochemistry and Microbiology, Uppsala University, Uppsala, Sweden. (4)
Epigenetics Program, Department of Biochemistry and Biophysics, Perelman School of Medicine, University of Pennsylvania (4)
University of Edinburgh (4)
Tianjin Medical University (4)
Department of Biology – Cellular Proteostasis and Mass Spectrometry, University of Konstanz (3)
Department of Biological Sciences, Vanderbilt University (3)
Laboratoire de Spectrometrie de Masse Proteomique Institut Curie PSL Research University (3)
Shanghai Key Laboratory of Bioactive Small Molecules, Department of Physiology and Pathophysiology, School of Basic Medical Sciences, Fudan University Shanghai Medical College, Shanghai 200032, China. (3)
Plant Physiology Group Westfälische WIlhelms-Universität Münster Germany (3)
School of Biosciences Firth Court, Western Bank University of Sheffield Sheffield, S10 2TN United Kingdom (3)
School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China (3)
State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan, Hubei 430062, China (3)
Mass Spectrometry Facility, Max Perutz Labs Vienna, University of Vienna, Vienna Biocenter, Dr.-Bohr-Gasse 7, 1030 Vienna (3)
Moffitt Cancer Center Tampa, FL, USA (3)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (3)
Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Denmark (3)
Division of Life Science, The Hong Kong University of Science and Technology, Hong Kong SAR, China (2)
Institute of Functional Epigenetics, Helmholtz Zentrum München, 85764 Neuherberg, Germany (2)
School of Life and Environmental Sciences, University of Sydney, NSW 2006 Australia (2)
Laboratório de Biologia Molecular e Sistêmica de Tripanossomatídeos, Instituto Carlos Chagas, Fundação Oswaldo Cruz, Curitiba, Parana, Brazil (2)
Systems Biology Initiative, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, New South Wales 2052, Australia (2)

IsPrivate

False (1)

Classification

protozoa (38)
fungi (18)
viruses (3)
helminths (2)

Modification

N6 (49)
N6-dimethyl-L-lysine (21)
4x(15)N labeled L-arginine (4)
2x(15)N labeled L-lysine (3)
4x(2)H labeled dimethylated L-lysine (2)
3x(2)H labeled N6-acetyl-L-lysine (1)
1x(15)N labeled L-valine (1)
+3amu) (1)
4-tetrahydrothiazine-3-carboxylic acid (1)
Not available (1)

Study type

ChIP-seq (754)
ChIP-chip by tiling array (455)
Transcription profiling by array (295)
RNA-seq of coding RNA (160)
Methylation profiling by high throughput sequencing (58)
ChIP-chip by array (46)
Methylation profiling by array (38)
Other (32)
Comparative genomic hybridization by array (17)
RNA-seq of non coding RNA (14)
Transcription profiling by tiling array (9)
CUT&RUN (9)
Unknown experiment type (6)
Cell line - High-throughput sequencing (6)
Genotyping by array (4)
ATAC-seq (4)
RNA-seq of total RNA (4)
DNA-seq (3)
Proteomic profiling by array (3)
RNAi profiling by array (2)
Hi-C (2)
MicroRNA profiling by array (2)
ChIP-chip by SNP array (1)
GRO-seq (1)
MNase-seq (1)
Differential (1)
CLIP-Seq (1)
Human - High-throughput sequencing (1)
Plant - High-throughput sequencing (1)
Animal - High-throughput sequencing (1)

Release Date

2013 (731)
2022 (544)
2015 (543)
2021 (541)
2014 (520)
2023 (508)
2011 (479)
2025 (477)
2016 (469)
2010 (450)
2012 (441)
2024 (421)
2020 (417)
2018 (396)
2017 (380)
2019 (372)
2009 (189)
2008 (154)
2007 (101)
2026 (80)
2006 (49)
2005 (30)
2004 (12)
2003 (9)
2002 (9)
2001 (3)
2000 (2)

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Histone serotonylation promotes pancreatic cancer development via lipid metabolism remodeling

Neurotransmitter serotonin (5-hydroxytryptamine [5-HT]) has emerged to play parallel roles in both neurobiology and oncology. Apart from receptor-mediated signaling transduction pattern, serotonin can be covalently integrated into histone (the post-translational modification known as histone sero...

2025-06-13 | MTBLS12569 | MetaboLights

Posttranslational modification analysis of Histone H3t

Comprehensive posttranslational modifications in the testis-specific histone variant H3t protein validated in tagged knock-in mice.

ORGANISM(S): Mus Musculus (mouse)

2024-09-13 | PXD052428 | JPOST Repository

Data for: A practical guide for analysis of histone post-translational modifications by mass spectrometry: best practices and pitfalls

Histone proteomics from 5 human cell lines, discussed in publication: "A practical guide for analysis of histone post-translational modifications by mass spectrometry: best practices and pitfalls". Further explanation of data types, methods, and analysis are available in Data Explanation document in...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

MSV000084298 | MassIVE

Environmental Conditions Elicit a Slow but Enduring Response of Histone Post-Translational Modifications in Mozambique Tilapia

Histone post-translational modifications (PTMs) are epigenetic marks that operate within the central dogma of molecular biology: upon an environmental stimulus, the histone PTMs surrounding DNA can be changed in a way that modifies gene expression, and, therefore, the abundance and composition of RN...

ORGANISM(S): Oreochromis Mossambicus

2024-12-10 | PXD042718 | panorama

Development of a high-throughput (10 minute microflow gradient) platform for quantitation of histone modifications on a new QTOF instrument

Histone post-translational modifications (PTMs) regulate gene expression patterns through epigenetic mechanisms. The 5 histone proteins (H1, H2A, H2B, H3, and H4) are extensively modified, with over 75 distinct modification types spanning more than 200 sites. Despite strong advances in mass spectrom...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2024-05-06 | MSV000094696 | MassIVE

Development of a high-throughput (10 minute microflow gradient) platform for quantitation of histone modifications on a new QTOF instrument

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2024-05-06 | MSV000094695 | MassIVE

Genome-wide analysis of histone modifications in human endometrial stromal cells [ChIP-Seq]

Dramatic changes of gene expressions are known to occur in human endometrial stromal cells (ESC) during decidualization. The changes in gene expression are associated with changes of chromatin structure, which are regulated by epigenetic mechanisms such as histone modifications. Here, we investiga...

ORGANISM(S): Homo sapiens

2015-03-03 | E-GEOD-57007 | biostudies-arrayexpress

Pathology tissue-quantitative mass spectrometry analysis to profile histone post-translational modification patterns in patient samples

Histone post-translational modifications (hPTMs) generate a complex combinatorial code that has been implicated with various pathologies, including cancer. Dissecting such a code in physiological and diseased states may be exploited for epigenetic biomarker discovery, but hPTM analysis in clinical s...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Mus Musculus (ncbitaxon:10090)

2016-08-25 | MSV000080100 | MassIVE

Histone modifications in Plasmodium falciparum at 18 hours post-invasion

Synchronized Plasmodium falciparum-infected human blood cultures were harvested at seven time points along the asexual intra-erythrocytic parasite life cycle: 0 hours post-invasion, 6 hpi, 12 hpi, 18 hpi, 24 hpi, 30 hpi and 36 hpi. Plasmodium histones were extracted using the standard hydrochloric ...

ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Plasmodium Falciparum 3d7 (ncbitaxon:36329)

2015-08-12 | MSV000079228 | MassIVE

Histone modifications in Plasmodium falciparum at 36 hours post-invasion

ORGANISM(S): Homo Sapiens (ncbitaxon:9606) Plasmodium Falciparum 3d7 (ncbitaxon:36329)

2015-08-12 | MSV000079231 | MassIVE

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17718 Results

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