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Unknown (54029)
Genomics (5999)
Transcriptomics (1453)
Proteomics (531)
Other (134)
Methylation profiling (69)
Metabolomics (36)
Models (20)
Genomic (2)
Clinical (1)
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Organisms

Homo sapiens (513)
Mus musculus (440)
Danio rerio (79)
Drosophila melanogaster (76)
Rattus norvegicus (73)
Arabidopsis thaliana (61)
Caenorhabditis elegans (58)
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Pimephales promelas (8)
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Volvox carteri (6)
Hypomesus transpacificus (5)
Eugenia uniflora (5)
Oryza sativa Japonica Group (4)
Oikopleura dioica (3)
Thermotoga maritima MSB8 (3)
Dehalococcoides (1)
Amphibia (1)

Organisms

Homo sapiens (244)
Mus musculus (230)
soil metagenome (48)
Caenorhabditis elegans (46)
Danio rerio (37)
Drosophila melanogaster (36)
Arabidopsis thaliana (32)
Saccharomyces cerevisiae (29)
Rattus norvegicus (24)
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Oryza sativa (15)
unidentified (11)
gut metagenome (11)
Marchantia polymorpha (10)
marine metagenome (10)
Zea mays (10)
Schizosaccharomyces pombe (9)
Fagus crenata (8)
Escherichia coli str. K-12 substr. MG1655 (8)
Sus scrofa (8)
Escherichia coli (8)
feces metagenome (7)
Solanum lycopersicum (7)
Macaca mulatta (7)
Alligator sinensis (6)
Xenopus laevis (6)
synthetic construct (6)
phyllosphere metagenome (6)
Acipenser naccarii (6)
Oryzias latipes (6)

Repository

ENA (5595)
geo (1292)
biostudies-arrayexpress (746)
pride (443)
iProX (36)
MetaboLights (33)
MassIVE (21)
BioModels (19)
EGA (17)
PAXDB (16)
PanoramaPublic (6)
EVA (5)
PeptideAtlas (4)
GNPS (3)
GPMDB (3)
dbGaP (2)
jPOST (2)
ExpressionAtlas (1)
Cell Collective (1)
NODE (1)

Tissue

Cell culture (46)
Leaf (22)
Plant cell (18)
Whole body (17)
Brain (16)
Blood serum (11)
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Sperm (9)
Heart (8)
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Seminal plasma (4)
Neutrophil (4)
T cell (4)
Protonema (3)

Disease

Disease free (8)
Parkinson's disease (3)
Not Available (3)
COVID-19 (3)
Breast cancer (3)
Normal (2)
Cardiovascular system disease (2)
Acute leukemia (2)
N/A (culture-derived) (1)
Raji Burkitt's lymphoma (1)
NF1 atypical neurofibroma (1)
Squamous cell carcinoma (1)
Cancer (1)
Colorectal adenocarcinoma (1)
Hepatocellular carcinoma (1)
Wilms tumour (1)
Rectal Neoplasms (1)
Intellectual disability (1)
Marfan syndrome (1)
Breast adenocarcinoma (1)
Fungal infectious disease (1)
Dental caries (1)
Polycystic Kidney (1)
Medulloblastoma (1)
Plasmodium falciparum malaria (1)
Brain glioblastoma multiforme (1)
Huntington Disease (1)
Liver disease (1)
Metabolic dysfunction-associated steatotic liver disease (1)
Cervix carcinoma (1)

Technology Type

Mass Spectrometry (443)
Shotgun proteomics (237)
Bottom-up proteomics (92)
Affinity purification coupled with mass spectrometry proteomics (53)
Data-dependent acquisition (38)
Mass spectrometry (22)
Gel-based experiment (22)
Data-independent acquisition (21)
Top-down proteomics (16)
Mass spectrometry assay (11)
Chemical cross-linking coupled with mass spectrometry proteomics (11)
Mass spectrometry imaging (5)
HDMSE (5)
SWATH MS (5)
DiaPASEF (4)
Affinity proteomics (2)
All-ion fragmentation (2)
SRM/MRM (2)
Illumina HumanOmni1-Quad-Illumina GenomeStudio (1)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000 (1)
Metaproteomics (1)
Proteogenomics (1)
MSE (1)

Instrument Platform

Illumina HiSeq 2000 (16)
Illumina HiSeq 2500 (11)
NextSeq 500 (8)
Illumina NovaSeq 6000 (8)
Illumina Genome Analyzer IIx (6)
NextSeq 550 (6)
Illumina HiSeq 4000 (6)
Illumina Genome Analyzer (3)
Illumina Genome Analyzer II (3)
Chromium 10x (2)
DNBSEQ-G400 (2)
Using NEBNext Ultra II DNA Library (1)
STAR v2.5.3a, rpkmforgenes, RSeQC 2.6.1 (1)
Illumina Nextera XT index kits (Set A–D) (1)
Oligo(dT) primer and SuperScript II reverse transcriptase (ThermoFisher Scientific), TapeStation 4200 or 2100 Bioanalyzer with a DNA High Sensitivity chip (Agilent Biotechnologies) (1)
Aria III (BD Biosciences) (1)
Chromium Next GEM Chip G (1)
Single-Cell Extraction: For enzymatic digestion, pronase (Septomyces argeus, 1 mg/mL) was applied for 25 minutes at room temperature for P0 to P8 datasets. Cells were dissociated and triturated into a single-cell suspension in ACSF supplemented with 1% fetal calf serum (FCS) and DNase (1 µL/10 mL). Trituration was performed using three glass Pasteur pipettes of decreasing diameters. For P30 datasets, enzymatic digestion and cell dissociation were carried out using the Worthington Papain Dissociation System, following the manufacturer’s instructions. Single-Nuclei Extraction: For nuclei isolation, the Hibernate™-E Medium was removed, and 500 µL of chilled 0.1X NP40 Lysis Buffer was added. Tissue was homogenized using a Pellet Pestle (15 strokes) and incubated on ice for 5 minutes. The suspension was pipette-mixed 10 times using a wide-bore pipette tip and incubated for an additional 10 minutes on ice. Following lysis, 500 µL of chilled wash buffer was added, and the mixture was pipette-mixed 5 times using a regular-bore pipette tip. The suspension was filtered through a 30 µm cell strainer into a 50 mL tube to remove debris. The filtered suspension was transferred to a 1.5 mL tube and centrifuged at 950 × g for 10 minutes at 4°C. The supernatant was carefully removed, and the nuclei pellet was retained for downstream analysis. (1)
RNA Qubit (Invitrogen Q32852) (1)
Zymo Quick-RNA Microprep Kit (Zymo Research R1051) (1)
12-well plates (Sarstedt 83.3921), 24-Well Plates (1)
Sequel II (1)
Computer (1)
PromethION (1)
Illumina Genome Analyser II (1)
Microcentrifuge (1)
PacBio RS II (1)
Affymetrix GeneChip Scanner 3000 7G (1)
GeneChip Scanner 3000 7G (1)
G2500A GeneArray scanner [Agilent Technologies] (1)

Publication Date

2025 (239)
2024 (215)
2026 (198)
2011 (181)
2023 (177)
2014 (152)
2022 (151)
2010 (143)
2015 (134)
2021 (133)
2016 (110)
2018 (106)
2012 (99)
2013 (98)
2020 (95)
2019 (90)
2017 (86)
2008 (80)
2009 (46)
2007 (34)
2006 (14)
2005 (13)
2004 (13)

UNIPROT ID/AC

A0A3B6D6K8_WHEAT (2)
A0A3B6FL62_WHEAT (2)
4565.Traes_5BL_EB5679CA8.1 (2)
A0A3B6IS21_WHEAT (2)
A0A3B6IXJ1_WHEAT (2)
4565.Traes_6BL_722B84F24.1 (2)
A0A3B6LM83_WHEAT (2)
4565.Traes_3DS_A379914C4.1 (2)
A0A3B6KHB8_WHEAT (2)
4565.Traes_7DL_F8AF46FFE.1 (2)
A0A3B6LVZ1_WHEAT (2)
4565.Traes_3DL_116693163.1 (2)
4565.Traes_3AL_367B04E24.1 (2)
A0A3B6MZ77_WHEAT (2)
4565.Traes_3AL_3E2526937.3 (2)
A0A3B6MRT2_WHEAT (2)
4565.Traes_3B_031DCC341.2 (2)
4565.Traes_4BS_F02B98B35.1 (2)
4565.Traes_4DL_C633C9AA1.1 (2)
4565.Traes_2DL_C18BDC009.1 (2)
A0A3B6JMZ7_WHEAT (2)
A0A0A7LUF6_WHEAT (2)
A0A3B6TIS4_WHEAT (2)
A0A3B6BZU7_WHEAT (2)
4565.Traes_3B_53E723173.1 (2)
P0AC51 (1)
P13473 (1)
P37840 (1)
P35567 (1)
P24033 (1)

ENSEMBL ID

ENSMUSG00000027651 (1)
ENSMUSG00000072849 (1)
ENSMUSP00000141097 (1)

CHEBI ID

CHEBI:15603 (4)
CHEBI:17368 (4)
CHEBI:15674 (3)
CHEBI:27732 (3)
CHEBI:28790 (3)
CHEBI:17895 (3)
CHEBI:17295 (3)
CHEBI:16414 (3)
CHEBI:17203 (3)
CHEBI:17821 (3)
CHEBI:17568 (3)
CHEBI:15428 (3)
CHEBI:29105 (1)
CHEBI:18243 (1)
CHEBI:17980 (1)
CHEBI:16136 (1)
CHEBI:16189 (1)
CHEBI:17709 (1)
CHEBI:17561 (1)
CHEBI:15377 (1)
CHEBI:24636 (1)
CHEBI:16288 (1)
CHEBI:18361 (1)
CHEBI:15379 (1)
CHEBI:15351 (1)
CHEBI:16236 (1)
CHEBI:15422 (1)
CHEBI:16761 (1)
CHEBI:16908 (1)
CHEBI:15846 (1)

Metabolite Name

Thymine (4)
Lumichrome (4)
Stearic acid (4)
L-Tryptophan (4)
L-Proline (4)
Sucrose (4)
Niveusin C (3)
9-Oxo-nonanoic acid (3)
Geniposidic acid (3)
Umbelliferone (3)
Pyrocatechol (3)
12,13-DiHOME (3)
Resolvin E1 (3)
Ferulic acid (3)
5-Methylcytosine (3)
6-Gingerol (3)
Aspirin (3)
Apigenin (3)
Caffeic acid (3)
Adrenic acid (3)
Valproic acid (3)
4-Hydroxybenzaldehyde (3)
Cholic acid (3)
3-Hydroxybutyric acid (3)
Valeric acid (3)
Malic acid (3)
Tetradecanedioic acid (3)
Raffinose (3)
Hexadecanedioic acid (3)
Glutaric acid (3)

First Public Date

2025 (883)
2026 (880)
2024 (740)
2023 (562)
2021 (484)
2022 (467)
2020 (284)
2013 (242)
2019 (238)
2014 (229)
2018 (199)
2017 (186)
2016 (98)
2015 (90)
2012 (8)
2011 (3)
2010 (2)

Modelling Approach

Constraint-based model (9)
Ordinary differential equation model (8)
Differential equation model (1)

Study status

Completed (1)

Lab affiliation

EDyP (61)
Professor of Genomic Evolution, School of Medicine, Conway Institute of Biomolecular and Biomedical Research, University College Dublin Belfield Dublin 4 (11)
Donnelly Centre for Cellular and Biomolecular Research, Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada (10)
Molecular Biosciences and the Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, TX, USA (9)
Molecular Biosciences and the Center for Systems and Synthetic Biology, The University of Texas at Austin, Austin, TX USA (6)
Laboratoire de Spectrométrie de Masse BioOrganique, Analytical Science department, IPHC, CNRS, Strasbourg University, UMR7178, Strasbourg, France (5)
Key Lab of Integrated Crop Pest Management of Shandong, College of Plant Health and Medicine, Qingdao Agricultural University, Qingdao, China (4)
MOE Key Laboratory of Biosystems Homeostasis & Protection, State Conservation Centre for Gene Resources of Endangered Wildlife, College of Life Sciences, Zhejiang University, Hangzhou 310058, P. R. China (3)
Director CIFRI (3)
Affiliation of Qiutao Xu: State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Agriculture, Guangxi University, Nanning 530004, China (3)
Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Parkville, Victoria 3010, Australia. (3)
State Key Laboratory for Development and Utilization of Forest Food Resources, Co-Innovation Center for Sustainable Forestry in Southern China, State Key Laboratory of Tree Genetics and Breeding, Key Laboratory of State Forestry and Grassland Administration on Subtropical Forest Biodiversity Conservation, College of Life Sciences, Nanjing Forestry University, Nanjing, Jiangsu, 210037, China (3)
Division of Cell Signalling and Immunology, School of Life Sciences, University of Dundee, UK (3)
Institute of Pharmaceutical Chemistry, Goethe University, Max-von-Laue-Str. 9, 60438 Frankfurt am Main, Germany Structural Genomics Consortium (SGC), Buchmann Institute for Life Sciences, Max-von-Laue-Str. 15, 60438 Frankfurt am Main, Germany German Cancer Consortium (DKTK) Mainz/Frankfurt, German Cancer Research Center (DKFZ), 69120 Heidelberg, Germany (3)
Proteomics facility, Central Science Laboratory, University of Tasmania (3)
Institute of Pharmacology and Structural Biology, CNRS, Toulouse, France (3)
Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (3)
Institute of Molecular Biology (IMB) (3)
Director Cifri (3)
Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China. (2)
VIB Midical Biotechnology Center, University of Gent, Belgium (2)
Center for Molecular Neurobiology (ZMNH), University Medical Center Hamburg-Eppendorf, Hamburg, Germany (2)
The Charles Perkins Centre, University of Sydney, Australia (2)
Laboratoire Protéomique, Réponse Inflammatoire et Spectrométrie de Masse (PRISM) - INSERM U1192 - Université Lille 1, Bât SN3, 1er étage, Cité Scientifique, F-59655 Villeneuve d’Ascq Cedex (2)
Systems Biology Initiative, School of Biotechnology and Biomolecular Sciences, University of New South Wales, New South Wales, 2052, Australia (2)
Univ. Grenoble Alpes, INSERM, CEA, UA13 BGE, CNRS, CEA, FR2048, 38000 Grenoble, France (2)
State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, College of Life Science and Technology, Guangxi University (2)
Biocenter, Faculty of Biology, Genetics Ludwig-Maximilians-University Munich (LMU) 82152 Martinsried, Germany (2)
Natural History Museum of Denmark University of Copenhagen, Øster Voldgade 5–7, 1350 Copenhagen, Denmark (2)
The Sainsbury Laboratory (2)

Keyword

Sphincter sparing surgery (1)
Wexner score (1)
LARS score (1)

IsPrivate

False (19)

Model Flag

Non Kinetic (6)

Submitter Keywords

FROG (5)

Classification

bacteria (111)
fungi (10)
protozoa (10)
viruses (6)
helminths (3)

Modification

N6 (3)
+3amu) (2)
6.020129 (1)
45.029395 (1)
10.008269 (1)
0.984016 (1)
3x(2)H labeled N6-acetyl-L-lysine (1)
-17.026549 (1)
42.010565 (1)
15.994915 (1)
N6-dimethyl-L-lysine (1)
57.021464 (1)
Not available (1)

Study type

Transcription profiling by array (323)
RNA-seq of coding RNA (136)
RNA-seq of non coding RNA (75)
ChIP-seq (56)
Comparative genomic hybridization by array (24)
Other (21)
Methylation profiling by high throughput sequencing (18)
Unknown experiment type (16)
Transcription profiling by tiling array (16)
ChIP-chip by tiling array (10)
RNA-seq of coding RNA from single cells (10)
ChIP-chip by array (9)
DNA-seq (7)
Transcription profiling by RT-PCR (3)
ATAC-seq (3)
Methylation profiling by array (3)
ScATAC-seq (2)
Tiling path by array (1)
One-color microarray (1)
Plant - High-throughput sequencing (1)
Animal - High-throughput sequencing (1)
Cell line - High-throughput sequencing (1)
Proteomic profiling by mass spectrometer (1)
RNAi profiling by array (1)
Genotyping by array (1)
Hi-C (1)
Ribo-seq (1)
Proteomic profiling by array (1)
RNA-seq of total RNA (1)
Observational (1)

Release Date

2025 (6327)
2022 (5741)
2023 (5227)
2024 (4971)
2021 (4786)
2020 (4052)
2019 (3599)
2018 (3173)
2017 (2580)
2016 (2465)
2015 (2186)
2014 (1802)
2013 (1298)
2012 (1105)
2011 (977)
2026 (870)
2010 (754)
2008 (565)
2009 (542)
2007 (436)
2006 (329)
2005 (241)
2004 (183)
2003 (115)
2002 (114)
2001 (96)
2000 (77)
1999 (71)
1998 (61)
1997 (24)

Location

Morocco (1)

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Introducing a common taxonomy to support learning from failure in conservation.

Not available

S-EPMC10107954 | biostudies-literature

Conservation resource allocation, small population resiliency, and the fallacy of conservation triage.

Not available

S-EPMC8518633 | biostudies-literature

Understanding author choices in the current conservation publishing landscape.

Not available

S-EPMC11959313 | biostudies-literature

Conservation genomics of Atlantic salmon

This SuperSeries is composed of the following subset Series: GSE19111: Conservation genomics of Atlantic salmon (Year One) GSE19119: Conservation genomics of Atlantic salmon (Year Two) Refer to individual Series

ORGANISM(S): Salmo salar

2010-05-19 | E-GEOD-19170 | biostudies-arrayexpress

Microtargeting for conservation.

Not available

S-EPMC6849751 | biostudies-literature

The major barriers to evidence-informed conservation policy and possible solutions.

Not available

S-EPMC6473637 | biostudies-literature

Scaling up private land conservation to meet recovery goals for grassland birds.

Not available

S-EPMC8518544 | biostudies-literature

The conservation physiology toolbox: status and opportunities.

Not available

S-EPMC6007632 | biostudies-literature

Recombination rate conservation in yeast

PRJEB15328 | ENA

Extensive conservation of ancient microsynteny across metazoans

Gene order, or microsynteny, is generally thought not to be conserved across metazoan phyla. Only a handful of exceptions, typically of tandemly duplicated genes such as Hox genes, have been discovered. Here, we performed a systematic survey for microsynteny conservation in 17 genomes and identified...

ORGANISM(S): Danio rerio

2012-06-21 | E-GEOD-35050 | biostudies-arrayexpress