Cell compartments

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Unknown (7221)
Genomics (1635)
Transcriptomics (1268)
Proteomics (538)
Other (172)
Models (38)
Methylation profiling (18)
Metabolomics (18)
Genomic (2)
Multiomics (2)

Organisms

Homo sapiens (762)
Mus musculus (740)
Arabidopsis thaliana (31)
Rattus norvegicus (25)
Drosophila melanogaster (22)
Glycine max (20)
Saccharomyces cerevisiae (15)
Danio rerio (12)
Caenorhabditis elegans (10)
Medicago truncatula (9)
Bos taurus (8)
Triticum aestivum (7)
Sus scrofa (7)
Aplysia californica (7)
Gallus gallus (7)
Macaca fascicularis (6)
Mammalia (4)
Schmidtea mediterranea (4)
Zea mays (3)
Murinae (2)
Mus sp. (2)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (2)
Leishmania amazonensis (2)
Theileria parva (2)
Alphainfluenzavirus (1)
Corylus avellana (1)
Salmo trutta (1)
Phaseolus vulgaris (1)
Coregonus clupeaformis (1)
uncultured bacterium (1)

Organisms

Mus musculus (587)
Homo sapiens (522)
Rattus norvegicus (21)
Drosophila melanogaster (16)
Glycine max (11)
Danio rerio (10)
Caenorhabditis elegans (8)
Gallus gallus (7)
Arabidopsis thaliana (6)
Saccharomyces cerevisiae (4)
Bos taurus (4)
Aplysia californica (3)
Streptomyces ambofaciens ATCC 23877 (2)
Schmidtea mediterranea (2)
Macaca mulatta (2)
Macaca fascicularis (2)
Vibrio alginolyticus (2)
Mus musculus musculus x Mus musculus castaneus (1)
Sulfolobus acidocaldarius DSM 639 (1)
Yersinia enterocolitica subsp. enterocolitica 8081 (1)
Leishmania amazonensis (1)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (1)
Macaca nemestrina (1)
Theileria parva (1)
Rousettus aegyptiacus (1)
Ascaris suum (1)
Escherichia coli DH5[alpha] (1)
Human immunodeficiency virus 1 (1)
Branchiostoma floridae (1)
Komagataella phaffii CBS 7435 (1)

Repository

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geo (1066)
biostudies-arrayexpress (556)
pride (434)
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GPMDB (4)
GNPS (3)
dbGaP (2)
ExpressionAtlas (1)
PeptideAtlas (1)

Tissue

Cell culture (110)
Epithelial cell (38)
Brain (28)
Fibroblast (17)
Kidney (15)
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Dendritic cell (11)
HeLa cell (11)
Liver (11)
Blood (9)
T cell (9)
B cell (8)
Macrophage (8)
Heart (7)
Hepatocyte (7)
Leaf (7)
Spleen (7)
Whole body (7)
Cell suspension culture (6)
Embryonic stem cell (6)
Skin (6)
Colon (5)
Keratinocyte (5)
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Early embryonic cell (4)
Lung (4)
Photosynthetic cell (4)
Others (1)

Disease

Breast cancer (8)
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Disease free (7)
Cervix carcinoma (6)
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Alzheimer's disease (5)
Acute leukemia (5)
Giardiasis (5)
Not Available (4)
Influenza (3)
Ovarian cancer (3)
Adenocarcinoma (2)
Brain cancer (2)
Glioblastoma (2)
Lymphoma (2)
Toxoplasmosis (2)
Wilson disease (2)
Autistic disorder (1)
Cardiovascular system disease (1)
Down syndrome (1)
Hodgkin's lymphoma (1)
Mature T-cell and NK-cell lymphoma (1)
Heart disease (1)
Cancer (1)
Colorectal cancer (1)
Diabetes, diabetic peripheral neuropathy (1)
Spinocerebellar ataxia type 1 (1)
Prostate Cancer (1)
Normal (1)
Atrial fibrillation (1)

Technology Type

Mass Spectrometry (434)
Shotgun proteomics (220)
Bottom-up proteomics (93)
Affinity purification coupled with mass spectrometry proteomics (80)
Data-dependent acquisition (51)
Gel-based experiment (29)
Data-independent acquisition (22)
Chemical cross-linking coupled with mass spectrometry proteomics (16)
Mass spectrometry (10)
SWATH MS (10)
Top-down proteomics (9)
Mass spectrometry assay (4)
All-ion fragmentation (4)
SRM/MRM (4)
DiaPASEF (3)
Illumina MiSeq (1)
NMR spectroscopy (1)
Affinity proteomics (1)
MSE (1)
Mass spectrometry imaging (1)

Instrument Platform

Illumina NovaSeq 6000 (31)
Illumina HiSeq 4000 (19)
NextSeq 500 (17)
Illumina HiSeq 2500 (15)
Illumina HiSeq 2000 (11)
Illumina HiSeq 1500 (8)
NextSeq 2000 (3)
Illumina MiSeq (3)
NextSeq 550 (3)
Illumina Genome Analyzer II (2)
Illumina NovaSeq X (2)
HiSeq X Ten (2)
5975C Series GC/MSD (Agilent) (2)
Maxwell® RSC 48 Instrument (Promega, AS8500) (1)
Transrectal ultrasound-guided systematic sampling of prostate tissue (TRUS biopsy) (1)
Hamamatsu Nanozoomer S60 (1)
HPC cluster Lobo (1)
Chromium 10xGenomics (1)
Advanced Sequencing Facility (1)
Epidermal cells : Trypsin dissociation / Dermal cells :MACS Whole Skin Dissociation Kit (1)
10x genomic Chromium controller (1)
Bio-Rad CFX96 Real-time System (1)
BD LSRFortessa (1)
FACSAria (BD) (1)
Agilent Bioanalyzer (1)
Not applicable (1)
Illumina Genome Analyzer IIx (1)
Scanning hardware (1)
Illumina HiSeq 1000 (1)
Illumina HiSeq 3000 (1)

Publication Date

2026 (268)
2024 (215)
2025 (215)
2023 (194)
2022 (174)
2021 (149)
2019 (117)
2020 (106)
2015 (101)
2013 (93)
2012 (83)
2014 (79)
2016 (67)
2018 (67)
2011 (61)
2017 (56)
2010 (50)
2008 (36)
2009 (28)
2005 (20)
2007 (17)
2006 (8)

UNIPROT ID/AC

P07321 (3)
Q75N73 (2)
P20963 (2)
P35225 (2)
P78552 (2)
P29597 (2)
P14753 (2)
Q9EQ21 (2)
Q921I1 (2)
P29350 (2)
P24394 (2)
P42229 (2)
P51692 (2)
O60674 (2)
P51149 (1)
P20339 (1)
P61970 (1)
P62826 (1)
Q2TSD0 (1)
Q14627 (1)
P63092 (1)
Q5T5Y4 (1)
P13473 (1)
P22629 (1)
P54750 (1)
Q08828 (1)
P04406 (1)
P37840 (1)
O14543 (1)
P17612 (1)

ENSEMBL ID

ENSMUSG00000029711 (1)
ENSMUSG00000006235 (1)
ENSG00000170477 (1)
ENSG00000247315 (1)

CHEBI ID

CHEBI:24875 (5)
CHEBI:6801 (5)
CHEBI:15996 (5)
CHEBI:17552 (5)
CHEBI:16856 (5)
CHEBI:32816 (4)
CHEBI:16908 (4)
CHEBI:16761 (4)
CHEBI:29034 (3)
CHEBI:15422 (3)
CHEBI:18367 (3)
CHEBI:18248 (2)
CHEBI:15611 (2)
CHEBI:17515 (2)
CHEBI:27470 (2)
CHEBI:16842 (2)
CHEBI:17489 (2)
CHEBI:1989 (2)
CHEBI:15635 (2)
CHEBI:17750 (2)
CHEBI:18243 (2)
CHEBI:422 (2)
CHEBI:4170 (2)
CHEBI:16474 (2)
CHEBI:15846 (2)
CHEBI:17858 (2)
CHEBI:15641 (2)
CHEBI:15637 (2)
CHEBI:16240 (2)
CHEBI:16526 (2)

Metabolite Name

Pantothenic acid (5)
Cytosine (4)
PI(38:5) (3)
Dihydrothymine (3)
Indole (3)
Taurine (3)
Glutathione (3)
Citric acid (3)
Fumaric acid (3)
Tyramine (3)
Phosphocreatine (3)
Adenine (3)
Cytidine (3)
Creatinine (3)
Creatine (3)
L-Valine (3)
TG(57:3) (2)
TG(57:4) (2)
Prometryn (2)
CL(70:6) (2)
PE(32:0) (2)
PE(32:2) (2)
PE(35:1) (2)
PG(38:5) (2)
PG(38:6) (2)
PI(38:3) (2)
PS(36:2) (2)
PS(42:7) (2)
SM(41:2) (2)
PI(38:4) (2)

First Public Date

2026 (222)
2024 (197)
2025 (172)
2023 (158)
2022 (127)
2014 (117)
2021 (98)
2020 (88)
2019 (73)
2018 (49)
2017 (49)
2015 (41)
2016 (25)
2013 (20)
2011 (1)

Modelling Approach

Ordinary differential equation model (34)
Physiologically based pharmacokinetic model (5)
Delayed differential equation model (1)

Lab affiliation

School of Life Sciences, University of Warwick (9)
Institute for Vascular Signalling, Centre for Molecular Medicine, Goethe University, Frankfurt am Main, Germany. (5)
BGI Research (3)
Department of Pharmaceutical Sciences, University of Illinois College of Pharmacy,Chicago,IL,USA Richard and Loan Hill Department of Biomedical Engineering, University of Illinois College of Engineering,Chicago, IL,USA University of Illinois Cancer Center,Chicago, IL,USA (3)
Department of Structural Biology, Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP) (3)
Institute of Biochemistry II, Faculty of Medicine, Goethe University, Frankfurt am Main, Germany Frankfurt Cancer Institute, Frankfurt am Main, Germany Cardio-Pulmonary Institute, Frankfurt am Main, Germany (3)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (3)
Biomolecular characterization unit, Center for Sustainable Resource Science, RIKEN (2)
CRG/UPF (2)
Cancer Research UK Cambridge Institute University of Cambridge Li Ka Shing Centre Cambridge CB2 0RE United Kingdom (2)
Cardiovascular Proteomics group, Spanish National Center for Cardiovascular Research, Madrid, Spain (2)
Dalian Institute of Chemical Physics, Chinese Academy of Sciences (2)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, United States (2)
Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland (2)
Department of Immunology and Cell Biology, Sherbrooke, QC, Canada (2)
Faculty of Biology, University of Freiburg, Freiburg, Germany (2)
Imperial College London (2)
Institute of Cell Biology, University of Bern, CH-3012 Bern, Switzerland (2)
Max Delbrück Center for Molecular Medicine in the Helmholtz Association (2)
Osnabrück University (2)
Princess Margaret Hospital University of Toronto University Health Network (2)
Principle Investigator (2)
Proteome Dynamics, Max Delbrück Center for Molecular Medicine, Robert-Rössle-Str. 10, D-13092 Berlin, Germany Charité-Universitätsmedizin Berlin, 10117 Berlin, Germany (2)
Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany (2)
Shandong Agricultural University (2)
Systems Biology Ireland, University College Dublin (2)
1- i3S - Instituto de Investigação e Inovação em Saúde, Universidade do Porto, Portugal 2- IBMC - Instituto de Biologia Celular e Molecular, Universidade do Porto, Portugal 3- ICBAS - Instituto de Ciências Biomédicas Abel Salazar, Universidade do Porto, Portugal (1)
1-Physiological Genomics, Biomedical Center (BMC), Ludwig-Maximilians Universitaet Muenchen, 82152 Planegg/Munich, Germany. 2- Institute for Stem Cell Research, Helmholtz Zentrum Muenchen, German Research Center for Environmental Health, 85764 Neuherberg, Germany. (1)
1. Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen, Denmark; 2. Proteomics and Singal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany (1)
1. Peripheral Neuropathy Research Group, Department of Biomedical Sciences, University of Antwerp, Antwerp, Belgium 2. Laboratory of Neuromuscular Pathology, Institute Born Bunge, Antwerp, Belgium (1)

IsPrivate

False (38)

Model Flag

Non Kinetic (2)

Submitter Keywords

Manuscript Accepted (1)
Immuno-oncology (1)

Classification

bacteria (8)
protozoa (2)
helminths (1)
viruses (1)
fungi (1)

Modification

Not available (4)
15.994915 (2)
4x(15)N labeled L-arginine (2)
10.008269 (1)
3x(2)H labeled N6-acetyl-L-lysine (1)
4-tetrahydrothiazine-3-carboxylic acid (1)
42.010565 (1)
45.029395 (1)
57.021464 (1)
58.005479 (1)

Study type

Transcription profiling by array (291)
RNA-seq of coding RNA (93)
ChIP-seq (29)
RNA-seq of coding RNA from single cells (23)
Other (20)
Methylation profiling by array (16)
Cell line - High-throughput sequencing (10)
RNA-seq of non coding RNA (9)
Unknown experiment type (8)
RNA-seq of total RNA (8)
ChIP-chip by tiling array (5)
Proteomic profiling by array (5)
Methylation profiling by high throughput sequencing (5)
Transcription profiling by RT-PCR (4)
Comparative genomic hybridization by array (4)
RNA-seq of non coding RNA from single cells (2)
Animal - High-throughput sequencing (2)
RNAi profiling by array (2)
Spatial transcriptomics by high-throughput sequencing (2)
ATAC-seq (2)
MicroRNA profiling by array (2)
Transcription profiling by SAGE (1)
Cell line - Single-cell sequencing (1)
Human - Two-color microarray (1)
RIP-chip by array (1)
Human - Methylation microarray (1)
Human - Single-cell sequencing (1)
Plant - High-throughput sequencing (1)
Translation profiling (1)
ChIP-chip by array (1)

Release Date

2022 (685)
2021 (633)
2023 (613)
2025 (583)
2020 (551)
2024 (495)
2019 (483)
2017 (408)
2018 (404)
2015 (397)
2016 (363)
2014 (330)
2013 (305)
2012 (258)
2011 (242)
2010 (226)
2009 (186)
2008 (137)
2026 (105)
2007 (86)
2006 (75)
2005 (60)
2002 (27)
2003 (25)
2004 (23)
2000 (23)
2001 (22)
1999 (16)
1998 (10)
1997 (3)

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The Toxoplasma micropore mediates endocytosis for selective nutrient salvage from host cell compartments

Apicomplexan parasite growth and replication relies on nutrient acquisition from host cells, in which intracellular multiplication occurs, yet the mechanisms that underlie the nutrient salvage remain elusive. Numerous ultrastructural studies have documented a plasma membrane invagination with a d...

2023-04-19 | MTBLS7006 | MetaboLights

A synthetic cell with integrated DNA self-replication and lipid biosynthesis

The emergence, organization, and persistence of cellular life are the result of the functional integration of metabolic and genetic networks. Here, we engineer phospholipid vesicles that can operate three essential functions, namely transcription-translation of a partial genome, self-replication ...

2026-02-02 | MTBLS13437 | MetaboLights

RNA sequencing of laser-capture microdissected compartments of the maize kernel identifies regulatory modules associated with endosperm cell differentiation

Endosperm is an absorptive structure that supports embryo development or seedling germination in angiosperms. The endosperm of cereals is a main source of food, feed, and industrial raw materials worldwide. However, the gene regulatory networks that control endosperm cell differentiation remain larg...

ORGANISM(S): Zea mays

2015-02-13 | E-GEOD-62778 | biostudies-arrayexpress

NicheProt: Cell-type-resolved proteomics of mouse spleen tissue compartments

This dataset contains proteomic analyses that validate the spatial proteomic technology, NicheProt, and its application to investigate dendritic cell phenotypes in inflammed mouse spleens. NicheProt is a 3D optical microscopy-guided, photobleaching-mediated cell barcoding approach to isolate intact ...

ORGANISM(S): Mus musculus (Mouse)

2026-03-19 | PXD075718 | Pride

Transcription profiling of Arabidopsis thaliana seed compartments at the globular embryo stage.

We collected globular stage seed compartments from 5 or 7-micron paraffin sections using the Leica LMD6000 system in order to identify the mRNAs present in different compartments of an Arabidopsis seed containing a globular stage embryo. For the purposes of this study we broke down the seed into 7 c...