Interphase - OmicsDI

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Unknown (2622)
Transcriptomics (2471)
Genomics (1187)
Proteomics (320)
Other (94)
Multiomics (59)
Metabolomics (32)
Models (3)
Methylation profiling (1)

Organisms

Homo sapiens (1431)
Mus musculus (699)
Caenorhabditis elegans (193)
Drosophila melanogaster (187)
Saccharomyces cerevisiae (167)
Arabidopsis thaliana (89)
Schizosaccharomyces pombe (56)
Triticum aestivum (37)
Gallus gallus (34)
Escherichia coli (31)
Rattus norvegicus (24)
Bacillus subtilis (15)
Candida albicans (15)
Bacillus subtilis subsp. subtilis str. 168 (14)
Escherichia coli str. K-12 substr. MG1655 (14)
Zea mays (14)
Danio rerio (12)
Bos taurus (12)
Sus scrofa (10)
Xenopus laevis (10)
Plasmodium falciparum (9)
Staphylococcus aureus (9)
Streptomyces coelicolor (8)
Neisseria meningitidis (8)
Hordeum vulgare (8)
Salmonella enterica subsp. enterica serovar Typhimurium (8)
Streptomyces venezuelae (7)
Macaca mulatta (7)
Oryza sativa (7)
Drosophila (1)

Organisms

Homo sapiens (147)
Mus musculus (86)
Drosophila melanogaster (26)
Saccharomyces cerevisiae (15)
Schizosaccharomyces pombe (10)
Arabidopsis thaliana (9)
Gallus gallus (5)
Caenorhabditis elegans (4)
Oryza sativa Japonica Group (2)
Cricetulus griseus (1)
Bacillus subtilis PY79 (1)
cold seep metagenome (1)
Cryptococcus neoformans (1)
seawater metagenome (1)
Xenopus laevis (1)
Zea mays (1)
soil metagenome (1)
Escherichia coli (1)
Toxoplasma gondii (1)

Repository

biostudies-arrayexpress (2919)
ENA (379)
geo (311)
pride (171)
EGA (129)
MassIVE (75)
PeptideAtlas (59)
MetaboLights (32)
EVA (12)
iProX (9)
GPMDB (5)
jPOST (3)
BioModels (2)
PanoramaPublic (2)
Cell Collective (1)
NODE (1)

Tissue

Cell culture (47)
Others (26)
Blood (11)
Peripheral blood mononuclear cell (10)
Brain (8)
Permanent cell line cell (8)
Heart (6)
Male Reproductive System (6)
Egg (6)
Heart (6)
Female Reproductive System (5)
Liver (5)
Early embryonic cell (5)
Lung (4)
Epithelial cell (4)
HeLa cell (4)
Kidney (4)
Leaf (4)
Kidney (3)
Lung (3)
Embryonic stem cell (3)
Liver (3)
Plant cell (3)
Pancreas (2)
Large intestine (1)
Marrow (1)
Pancreas (1)
Small intestine (1)
Adrenal Gland (1)
Digestive System (1)

Disease

Normal (16)
Infiltrating ductal carcinoma (2)
Squamous Cell Carcinoma (2)
Mammary tumor (2)
Colorectal adenocarcinoma (2)
Adenocarcinoma (2)
Central nervous system cancer (2)
Non tumoral reference sample (1)
Retinoblastoma (1)
XCGD (1)
HPV positive (1)
Hepatitis C virus-induced hepatocellular carcinoma (1)
Mantle cell lymphoma (1)
Extranodal NK/T-Cell Lymphoma derived cell line (1)
Phyllodes tumor (1)
Burkitt's lymphoma (1)
Adult dermatomyositis (1)
Invasive Ductal Carcinoma (1)
Immuno-osseus dysplasiaspondyloenchondrodysplasia (SPENCD) (1)
Mitochondrial complex I deficiency (1)
Larynxcarcinoma T4N2aM0 (1)
Glioma (1)
Pancreatic ductal adenocarcinoma (1)
Infected (1)
MFC II (1)
Mammary adenocarcinoma (pleural effusion) (1)
No local recurrence (1)
Triple negative breast cancer (1)
Marsh 3 (1)
Follicular lymphoma (1)

Technology Type

Mass Spectrometry (171)
Shotgun proteomics (88)
Bottom-up proteomics (43)
Data-dependent acquisition (29)
Mass spectrometry (24)
Affinity purification coupled with mass spectrometry proteomics (18)
Gel-based experiment (10)
Illumina HiSeq 2000 (9)
Mass spectrometry assay (6)
Data-independent acquisition (6)
NMR spectroscopy (4)
Illumina HiSeq 2500 (2)
Illumina MiSeq (2)
Illumina HiSeq 2000, ILLUMINA (2)
Illumina HiSeq 2500, Illumina HiSeq 4000, ILLUMINA (1)
Illumina HiSeq 4000, ILLUMINA, Illumina HiSeq 2000 (1)
ILLUMINA, Illumina HiSeq 2500, Ion Torrent PGM, ION_TORRENT (1)
OpenArray (1)
Illumina HumanOmni5 (1)
HiSeq X Ten (ILLUMINA) (1)
HiSeq X Ten, Illumina HiSeq 2000, Illumina MiSeq, ILLUMINA, Illumina HiSeq 2500 (1)
Illumina 450K array, ILLUMINA, Illumina HiSeq 2000, NextSeq 500 (1)
Infinium OncoArray-500K BeadChip (1)
COMPLETE_GENOMICS, Complete Genomics (1)
Complete Genomics, COMPLETE_GENOMICS (1)
ILLUMINA, Illumina HiSeq 2500 (1)
HumanOmni1 Quad BeadChip (1)
Illumina HiSeq 2500, Illumina MiSeq, NextSeq 500, Illumina HiSeq 2000 (1)
ZCall, Illumina HumanExome-12v1_A-GenCall (1)
Illumina, Illumina 300 Duo V2 - Bead Studio (1)

Instrument Platform

Illumina NovaSeq 6000 (43)
NextSeq 500 (37)
Illumina HiSeq 2000 (36)
Illumina HiSeq 2500 (26)
Illumina HiSeq 4000 (14)
NextSeq 550 (12)
NextSeq 2000 (9)
ScanArray Express HT (8)
Illumina HiSeq 3000 (8)
Illumina MiSeq (7)
Illumina NovaSeq X (6)
Illumina Genome Analyzer II (6)
BGISEQ-500 (5)
PromethION (4)
Axon- GenePix4000B (4)
HiSeq X Ten (4)
GenePix 4000A [Axon Instruments] (3)
GenePix 4000B [Axon Instruments] (3)
MinION (3)
Axon Instruments GenePix 4000B scanner (2)
High resolution C. scanner (2)
Sony SH800 (2)
Affymetrix GeneChip Scanner 3000 (2)
Spectronic Helios Alpha UV-Vis spectrophotometer (2)
Other (2)
Illumina Genome Analyzer IIx (2)
ScanArray Express HT [PerkinElmer] (2)
ScanArray 6000 [Perkin Elmer] (2)
Axon GenePix 4000B scanning hardware (2)
NextSeq 1000 (2)

Publication Date

2010 (453)
2014 (409)
2013 (390)
2012 (347)
2015 (345)
2011 (265)
2016 (211)
2008 (134)
2009 (122)
2025 (94)
2019 (88)
2024 (85)
2026 (80)
2022 (75)
2021 (72)
2023 (69)
2020 (67)
2007 (65)
2017 (56)
2018 (48)
2005 (46)
2006 (42)
2004 (13)
2003 (1)
2002 (1)
2001 (1)

UNIPROT ID/AC

A2BFH1 (58)
A5A3E0 (58)
A6NHL2 (58)
A6NNZ2 (58)
B1AK88 (58)
B3KML9 (58)
B4DHB3 (58)
B4DKM5 (58)
B4DRV9 (58)
B4E3A4 (58)
B9VP19 (58)
D3DPU2 (58)
E5RK69 (58)
E7EX29 (58)
E9PFP8 (58)
G8JLB6 (58)
H0Y5C6 (58)
H0Y5F3 (58)
H0YM50 (58)
H7BZ94 (58)
H7C144 (58)
I3L3D5 (58)
I3L4N8 (58)
I3NI03 (58)
Q24044 (1)
P30291 (1)
P54350 (1)
P20483 (1)
P23572 (1)
P20439 (1)

ENSEMBL ID

ENSG00000170477 (56)
ENSG00000229353 (34)
ENSG00000147251 (21)
ENSG00000247315 (16)
ENSG00000204131 (9)
ENSG00000214897 (3)
ENSG00000176092 (2)

CHEBI ID

CHEBI:17053 (9)
CHEBI:30769 (9)
CHEBI:15891 (8)
CHEBI:17568 (8)
CHEBI:18012 (8)
CHEBI:17895 (8)
CHEBI:16708 (7)
CHEBI:422 (7)
CHEBI:15971 (7)
CHEBI:21547 (7)
CHEBI:16015 (7)
CHEBI:16977 (7)
CHEBI:16414 (7)
CHEBI:17191 (7)
CHEBI:15354 (7)
CHEBI:17295 (7)
CHEBI:17754 (6)
CHEBI:116314 (6)
CHEBI:16857 (6)
CHEBI:30887 (6)
CHEBI:18183 (6)
CHEBI:17115 (6)
CHEBI:18050 (6)
CHEBI:16856 (6)
CHEBI:32816 (6)
CHEBI:44897 (6)
CHEBI:17203 (6)
CHEBI:17196 (6)
CHEBI:15428 (6)
CHEBI:33699 (1)

Metabolite Name

Choline (9)
Uracil (8)
Adenine (8)
L-Tyrosine (8)
L-Phenylalanine (8)
Hypoxanthine (8)
L-Histidine (7)
Adenosine (7)
L-Valine (7)
L-Asparagine (6)
Indole (6)
Taurine (6)
L-Proline (6)
Guanine (6)
Cytosine (6)
L-Tryptophan (6)
L-Isoleucine (6)
Glycerol (5)
L-Alanine (5)
L-Threonine (5)
L-Lysine (5)
Fumaric acid (5)
L-Glutamic acid (5)
Spermidine (5)
Isoleucine (5)
Pyridoxal (5)
L-Serine (5)
L-Leucine (5)
Inosine (5)
P-Coumaroylputrescine (4)

First Public Date

2025 (62)
2019 (38)
2014 (36)
2024 (34)
2026 (30)
2022 (25)
2021 (25)
2017 (24)
2015 (24)
2013 (22)
2023 (21)
2018 (16)
2020 (14)
2016 (7)
2012 (1)

Modelling Approach

Ordinary differential equation model (2)

Lab affiliation

University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (9)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (4)
IRIC-Université de Montréal (3)
University of Cologne (3)
University of Edinburgh (3)
Whitehead Institute and MIT (3)
Department of Proteomics and Signal Transduction, Max-Planck-Institute of Biochemistry, Munich, Germany (2)
Head of the Curie Institute Mass Spectrometry Platform (2)
Molecular Physiology of the Synapse Laboratory Institut de Recerca Sant Pau (IR Sant Pau) C/Sant Quintí, 77-79 08041 Barcelona Spain (2)
State Key Laboratory of Microbial Metabolism (2)
Wellcome Trust Centre for Cell Biology (2)
Yale Cancer Biology Institute (2)
Aalborg University (1)
Associate Professor, Vice president of the ISBMB society Dept. of Biological Chemistry, room 1-637 The Alexander Silberman Institute of Life Science The Hebrew University of Jerusalem Givat Ram Campus, Jerusalem, 91904, Israel (1)
Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (1)
Beijing Bio-Tech Pack Technology Company Ltd. (1)
Bioanalytical Mass Spectrometry Group, Max Planck Institute for Multidisciplinary Sciences, Germany (1)
Biology department, Washington University in Saint Louis, Saint Louis, MO, USA (1)
Biomedical Center Munich Molecular Biology Großhaderner Strasse 9 82152 Planegg-Martinsried Phone: (089) 2180 71602 (1)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht (1)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht, Padualaan 8, 3584 CH Utrecht, The Netherlands (1)
Biozentrum, University of Basel (1)
Brunel University London (1)
CRUK - Beatson Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (1)
CSIR-Centre for Cellular and Molecular Biology Hyderabad India (1)
Cancer Science Institute of Singapore, National University of Singapore (1)
Cardiovascular Research Institute (1)
Carnegie Mass Spectrometry Facility (1)
Cell Biology, Neurobiology and Biophysics, Department of Biology, Faculty of Science, Utrecht University, Padualaan, Utrecht, 3584 CS, The Netherlands (1)
Center for Biomedical Mass Spectrometry, Department of Biochemistry, Boston University School of Medicine, Boston, Massachusetts, USA (1)

IsPrivate

False (2)

Submitter Keywords

Immuno-oncology (1)

Classification

fungi (1)
protozoa (1)
bacteria (1)

Modification

N6 (1)
Not available (1)

Study type

Transcription profiling by array (850)
ChIP-seq (382)
Comparative genomic hybridization by array (375)
RNA-seq of coding RNA (333)
ChIP-chip by tiling array (229)
Other (151)
Methylation profiling by high throughput sequencing (127)
Genotyping by array (90)
Unknown experiment type (56)
Methylation profiling by array (46)
Transcription profiling by tiling array (45)
RNA-seq of non coding RNA (41)
DNA-seq (39)
ChIP-chip by array (37)
RNA-seq of coding RNA from single cells (20)
Hi-C (13)
RNA-seq of total RNA (10)
Cell line - High-throughput sequencing (7)
Animal - High-throughput sequencing (6)
4C (6)
High-throughput sequencing (5)
RNAi profiling by array (4)
Genotyping by high throughput sequencing (4)
Transcription profiling by SAGE (3)
Transcription profiling by RT-PCR (3)
Bisulfite-seq (3)
ATAC-seq (3)
RIP-seq (3)
MNase-seq (2)
CLIP-Seq (2)

Release Date

2010 (516)
2014 (447)
2013 (446)
2015 (421)
2012 (416)
2011 (324)
2016 (307)
2025 (281)
2023 (245)
2021 (233)
2024 (226)
2022 (211)
2020 (182)
2008 (179)
2009 (169)
2018 (168)
2019 (167)
2017 (129)
2007 (103)
2006 (75)
2026 (74)
2005 (71)
2004 (34)
2003 (25)
2002 (24)
2001 (21)
1998 (19)
1999 (11)
2000 (10)
1997 (4)

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Proteomics dataset for interphase chromatin probabilities

Chromatin proteins mediate replication, regulate expression and ensure integrity of the genome. So far, a comprehensive inventory of interphase chromatin has not been determined. This is largely due to its heterogeneous and dynamic composition, which makes conclusive biochemical purification difficu...

ORGANISM(S): Homo sapiens (Human)

2014-02-18 | PXD000493 | Pride

Condensin plays a role in both interphase nuclei and premature chromosome condensation

Purpose: to identify how condensin I removal affects gene expression globally. Methods: Chicken DT40 CAP-H KO cells were treated with or without dox for 36 h. Total RNA samples were extracted and subjected to sequencing using an Illumina Hiseq2000 platform. Library preparation and Illumina sequencin...

ORGANISM(S): Gallus gallus

2017-05-03 | E-GEOD-74892 | biostudies-arrayexpress

Intricate structure of the interphase chromocenter revealed by the analysis of a factor involved in species formation

In higher eukaryotes centromeres often coalesce into a large intranuclear domain called the chromocenter. Chromocenters are important for the organization of pericentric heterochromatin and a disturbance of their formation results in an upregulation of repetitive elements and causes defects in chrom...

ORGANISM(S): Drosophila melanogaster (Fruit fly)

2020-03-23 | PXD012551 | Pride

Chromatin proteomics Drosophila Chromocenter Centromeres

Distribution of Drosophila insulator proteins during interphase and mitosis

Here we compare the distribution of insulator proteins during interphase and mitosis. We performed ChIP-seq analysis on purified populations of interphase and mitotic Kc cells, using antibodies against CP190, dCTCF, BEAF, and Su(Hw). Examination of 4 different insulator proteins during interphase a...

ORGANISM(S): Drosophila melanogaster

2013-01-21 | E-GEOD-32584 | biostudies-arrayexpress

Differential nucleosome organization in human interphase and metaphase chromosomes [ChemMap]

PRJNA1258949 | ENA

An interphase actin wave promotes mitochondrial content mixing and 2 organelle homeostasis

Across the cell cycle, mitochondrial dynamics are regulated by a cycling wave of actin polymerization/depolymerization. In metaphase, this wave induces the assembly of actin comet tails on mitochondria that propel these organelles to drive spatial mixing,resulting in their equitable inheritance by d...

ORGANISM(S): Homo sapiens (Human)

2024-06-23 | PXD050085 | Pride

Fmnl1 Actin Mitochondrial fission Homeostasis

Differential nucleosome organization in human interphase and metaphase chromosomes [MNase-Seq]

PRJNA1258947 | ENA

Differential nucleosome organization in human interphase and metaphase chromosomes [Mnase-seq]

PRJNA1102346 | ENA

Differential nucleosome organization in human interphase and metaphase chromosomes [Chemical Mapping]

PRJNA1102344 | ENA

MLL and Pol2 Chip-chip in interphase and mitotic arrested cells

Mixed Lineage Leukemia (MLL) and its metazoan Trithorax orthologs have been linked with the epigenetic maintenance of transcriptional activity. To identify mechanisms by which MLL perpetuates active transcription in dividing cells, we investigated its role during M-phase of the cell cycle. Unlike ot...

ORGANISM(S): Homo sapiens

2010-05-19 | E-GEOD-19155 | biostudies-arrayexpress

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