Ecology - OmicsDI

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Unknown (76881)
Genomics (6679)
Proteomics (280)
Transcriptomics (175)
Metabolomics (127)
Other (13)
Models (11)
Genomic (4)
Methylation profiling (2)

Organisms

Homo sapiens (22)
Mus musculus (22)
Arabidopsis thaliana (14)
Populus trichocarpa x Populus deltoides (10)
Pimephales promelas (6)
Danio rerio (6)
Bacteria (6)
Bacteroides thetaiotaomicron (5)
Salamandra salamandra (5)
Neurospora crassa (5)
Cottus (4)
Mus (3)
Solenopsis invicta (3)
Drosophila mojavensis (3)
Pinctada fucata (2)
Polistes metricus (2)
Fusarium verticillioides (2)
Neotoma bryanti (2)
Oryza rufipogon (2)
Laccaria bicolor (2)
Calanus finmarchicus (2)
uncultured organism (2)
Human immunodeficiency virus 1 (1)
Cardamine sp. SIM-2007 (1)
Oreochromis mossambicus (1)
Atta vollenweideri (1)
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Acropora millepora (1)

Organisms

activated sludge metagenome (184)
soil metagenome (160)
Xanthomonas oryzae pv. oryzae (100)
Arabidopsis thaliana (77)
marine metagenome (46)
Nicotiana attenuata (37)
Oryza sativa (33)
Drosophila melanogaster (32)
salt lake metagenome (31)
sediment metagenome (28)
Homo sapiens (28)
Halorubrum lacusprofundi (24)
insect gut metagenome (23)
Staphylococcus epidermidis (22)
aquatic metagenome (21)
Folsomia candida (19)
freshwater metagenome (19)
gut metagenome (18)
rhizosphere metagenome (18)
marine sediment metagenome (17)
Escherichia coli (17)
human gut metagenome (17)
Mus musculus (17)
Proteus mirabilis (16)
Bacteria (14)
Caenorhabditis elegans (14)
Pseudomonas oryzihabitans (13)
biofilm metagenome (13)
Klebsiella pneumoniae (13)
Nitrosospira multiformis (12)

Repository

ENA (6657)
pride (230)
geo (103)
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biostudies-arrayexpress (95)
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jPOST (1)
MetabolomicsWorkbench (1)

Tissue

Whole body (29)
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Liver (5)
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Sputum (1)

Disease

Wounds and Injuries (11)
Disease free (10)
Crohn's disease (2)
Inflammatory bowel disease (2)
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Cystic fibrosis (1)
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Colitis (1)
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Influenza (1)
Mixed disorder as reaction to stress (1)
Primary amebic meningoencephalitis (1)
Type 1 diabetes mellitus (1)

Technology Type

Mass Spectrometry (231)
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Mass spectrometry assay (24)
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Gel-based experiment (18)
NMR spectroscopy (12)
SWATH MS (9)
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Affinity purification coupled with mass spectrometry proteomics (3)
Chemical cross-linking coupled with mass spectrometry proteomics (3)
Human Cardio Metabochip (1)
Illumina HumanMethylation450 (1)
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ESI (1)
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Proteogenomics (1)
RNA mass spectrometry (1)
SRM/MRM (1)
Sodium dodecyl sulfate polyacrylamide gel electrophoresis (1)

Instrument Platform

Liquid Chromatography MS - positive - reverse phase (29)
Liquid Chromatography MS - negative - reverse phase (24)
Q Exactive (22)
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MicrOTOF-Q II ESI-Qq-TOF (Bruker) (7)
LTQ Orbitrap Elite (4)
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TripleTOF 6600 (3)
Illumina MiSeq (2)
- (2)
1200 series LC/MSD VL (2)
6540 Q-TOF LC/MS (2)
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Illumina HiSeq 2500 (1)
Illumina NovaSeq 6000 (1)
Unspecified (1)
Dionex instrument model (1)
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Q-Exactive (1)
6546 Q-TOF LC/MS (Agilent instrument model) (1)
LTQ (1)
LTQ Orbitrap (1)
Orbitrap Fusion (1)
Orbitrap Fusion Lumos (1)
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TripleTOF 5600 (1)
Xevo G2 Q-Tof (1)

Publication Date

2024 (69)
2026 (64)
2025 (63)
2023 (50)
2022 (47)
2020 (44)
2019 (39)
2021 (36)
2015 (32)
2018 (29)
2012 (22)
2016 (20)
2013 (19)
2008 (17)
2010 (15)
2014 (13)
2011 (13)
2017 (11)
2009 (7)
2007 (2)
2004 (1)

CHEBI ID

CHEBI:28044 (18)
CHEBI:15428 (16)
CHEBI:16449 (15)
CHEBI:17822 (14)
CHEBI:17750 (14)
CHEBI:15741 (14)
CHEBI:24898 (13)
CHEBI:22660 (12)
CHEBI:25017 (12)
CHEBI:27266 (12)
CHEBI:16919 (12)
CHEBI:15354 (12)
CHEBI:18186 (11)
CHEBI:26986 (11)
CHEBI:28300 (11)
CHEBI:15891 (11)
CHEBI:25094 (11)
CHEBI:16335 (11)
CHEBI:27897 (11)
CHEBI:30769 (11)
CHEBI:16811 (10)
CHEBI:17234 (10)
CHEBI:18237 (10)
CHEBI:18012 (10)
CHEBI:17596 (10)
CHEBI:26271 (9)
CHEBI:16708 (9)
CHEBI:17754 (9)
CHEBI:16704 (9)
CHEBI:16027 (9)

Metabolite Name

Creatine (14)
Betaine (13)
Choline (12)
Tryptophan (12)
Phenylalanine (11)
Guanine (10)
Adenine (10)
Creatinine (10)
Glycine (9)
Taurine (9)
Tyrosine (9)
Adenosine (9)
Hypoxanthine (9)
Phenylalanine (8)
Alanine (8)
Threonine (8)
Thymidine (8)
Linoleamide (7)
Glycine (7)
Tyrosine (7)
Alanine (7)
Isoleucine (7)
Leucine (7)
Uracil (7)
Valine (7)
Sphingosine (7)
7-Methylguanine (7)
Erucamide (7)
L-Proline (7)
Lysine (7)

First Public Date

2024 (871)
2026 (687)
2025 (685)
2021 (498)
2023 (494)
2020 (438)
2017 (436)
2022 (404)
2014 (394)
2019 (363)
2018 (361)
2013 (338)
2015 (332)
2016 (328)
2012 (18)
2011 (7)
2010 (3)

Modelling Approach

Ordinary differential equation model (9)
Constraint-based model (2)

Lab affiliation

Department of Ecology & Evolutionary Biology, University of California, Los Angeles, CA (8)
Department of Molecular Ecology MPI for Marine Microbiology Celsiusstr. 1 D-28359 Bremen Germany (6)
Fraunhofer Institute for Molecular Biology and Applied Ecology IME Auf dem Aberg 1 | 57392 Schmallenberg | Germany (5)
Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China (4)
Department of Ecology, Evolution and Behavior Alexander Silberman Institute of Life Sciences Faculty of Science The Hebrew University of Jerusalem (4)
Institute of Ecology and Evolution, University of Bern, Baltzerstrasse 6, CH-3012 Bern, Switzerland (4)
Cornell University Department of Microbiology (3)
Faculty of Medicine, University of Ottawa, Ottawa, ON Canada (3)
Key Laboratory of Tropical Marine Bio-resources and Ecology,South China Sea Institute of Oceanology, Chinese Academy of Sciences (3)
CAS Key Laboratory of Tropical Marine Bio-resources and Ecology and Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Science. Guangzhou, China (2)
Centre for Functional Ecology, University of Coimbra (2)
Department Ecotoxicogenomics, Fraunhofer Institute for Molecular Biology and Applied Ecology IME, Schmallenberg. (2)
Department of Ecology and Evolutionary Biology, University of California, Los Angeles, CA (2)
Department of Entomology BIO5 Institute Department of Ecology and Evolutionary Biology University of Arizona (2)
Department of Systems Immunology, Weizmann Institute of Science, Rehovot, Israel (2)
Department of ecology, evolution and behavior, Hebrew University of Jerusalem, Jerusalem, Israel (2)
Fraunhofer Attract Eco’n’OMICs, Fraunhofer Institute for Molecular Biology and Applied Ecology IME, Auf dem Aberg 1, 57392 Schmallenberg. (2)
Frontiers Science Center for Cell Responses, Department of Plant Biology and Ecology, College of Life Sciences, Nankai University, 300071 Tianjin, China (2)
Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China. (2)
Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China (2)
Marine Biology and Ecology Department, Rosenstiel School of Marine and Atmospheric Science, University of Miami (2)
Professor of College of the Environment and Ecology (2)
UMR Institut Sophia Agrobiotech, INRAE 1355, CNRS and Université Côte d’Azur, 400, Route des Chappes, BP 167, 06903 Sophia Antipolis Cedex, France (2)
University of Cologne, Germany (2)
University of Illinois Urbana-Champaign (2)
1. Graduate Institute of Biomedical Sciences, College of Medicine, Chang Gung University, Taoyuan 33302, Taiwan. 2. Molecular Medicine Research Center, Chang Gung University, Taoyuan 33302, Taiwan. 3. Department of Otolaryngology-Head and Neck Surgery, Chang Gung Memorial Hospital, Linkou 33305, Taiwan. 4. Research Center for Food and Cosmetic Safety, College of Human Ecology, Chang Gung University of Science and Technology, Taoyuan 33302, Taiwan. (1)
Aalborg University Department of Chemistry and Bioscience Section of Biotechnology Head of Functional Ecology group Professor (1)
Animal Venomics Lab, Fraunhofer Institute for Molecular Biology and Applied 4 Ecology (IME), Ohlebergsweg 12, 35392 Giessen, Germany (1)
Animal Venomics Lab, Fraunhofer Institute for Molecular Biology and Applied Ecology IME Branch for Bioresources, Germany (1)
Archaea Biology and Ecogenomics Department of Functional and Evolutionary Ecology University of Vienna (1)

IsPrivate

False (11)

Submitter Keywords

Manuscript Accepted (1)

Classification

bacteria (193)
viruses (26)
protozoa (6)
fungi (3)

Modification

4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (64)
RNA-seq of coding RNA (17)
Unknown experiment type (6)
Other (4)
DNA-seq (1)
Methylation profiling by high throughput sequencing (1)
RNA-seq of non coding RNA (1)

Release Date

2022 (8247)
2025 (8233)
2021 (7295)
2023 (7216)
2024 (6445)
2020 (6073)
2019 (5595)
2018 (4998)
2017 (4380)
2016 (3940)
2015 (3390)
2014 (2698)
2013 (1757)
2012 (1348)
2026 (1186)
2011 (1068)
2010 (693)
2009 (549)
2008 (482)
2007 (382)
2006 (284)
2005 (220)
2004 (131)
2003 (96)
2002 (78)
2001 (55)
2000 (51)
1999 (41)
1998 (38)
1997 (4)

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Gut fungal landscape in colorectal cancer and its cross-kingdom interplay with gut microbial ecology

Background: The gut microbiota is a key hallmark of tumor and plays a central role in colorectal cancer (CRC). However, the contribution of gut fungi, an important community of gut microbes, remains substantially understudied in CRC.

Objective: To characterize the gut fungal landscape in CR...

2025-07-26 | MTBLS12776 | MetaboLights

Microbial ecology of nontuberculous mycobacteria (NTM) in cystic fibrosis (CF) sputum

Not available

ORGANISM(S): Homo sapiens

ST000711 | MetabolomicsWorkbench

Ecology-guided Bacillus SynCom from a rice–duckweed core reveals division of labor for concurrent growth promotion and sheath blight suppression

Ecologically derived synthetic communities can provide robust plant benefits, yet generalizable rules for assembling multifunctional consortia remain limited. We hypothesized that a “top-down” community assembled from an ecological core would yield complementary functions and resilience superior ...

2025-09-22 | MTBLS13022 | MetaboLights

Microbiome-metabolome reveals rhizosphere ecology, bioactives and antioxidant shifts in Paeonia lactiflora Pall under intercropping and harvest periods

Paeonia lactiflora Pall (P. lactiflora) is a plant with medicinal and economic value; during its growth, root secondary metabolism and rhizosphere microbes interact, but no systematic study has examined microbiome and metabolome changes under different planting and harvest times; to address this, we...

2026-07-23 | MTBLS15141 | MetaboLights

Ecology-TBBPA&PCB

Ecology-TBBPA&PCB Raw sequence reads

PRJNA1171117 | ENA

Ecology of Carnobacterium maltaromaticum

PRJEB40429 | ENA

Transcriptome analyses during fruiting body formation in Fusarium graminearum and Fusarium verticillioides reflect species life history and ecology

Fusarium graminearum and F. verticillioides are devastating cereal pathogens with very different life history and ecological characteristics. F. graminearum is homothallic, and sexual spores are an important component of its life cycle, responsible for disease initiation. F. verticilloides is hetero...

ORGANISM(S): Fusarium verticillioides

2014-09-30 | E-GEOD-61865 | biostudies-arrayexpress

Human Postmortem Microbiome - Ecology of 188 Cases

PRJEB22642 | ENA

BMC Ecology image competition: the winning images.

Not available

S-EPMC3606310 | biostudies-literature

Integrating the underlying structure of stochasticity into community ecology.

Not available

S-EPMC7027466 | biostudies-literature