Segmented - OmicsDI

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Unknown (5407)
Transcriptomics (595)
Proteomics (422)
Genomics (417)
Metabolomics (60)
Models (33)
Other (19)
Methylation profiling (2)

Organisms

Homo sapiens (365)
Mus musculus (206)
Bos taurus (12)
Rattus norvegicus (12)
Drosophila melanogaster (10)
Danio rerio (8)
Enchytraeus albidus (6)
Staphylococcus aureus (6)
Oncorhynchus mykiss (6)
Marmota monax (5)
Sus scrofa (4)
groundwater metagenome (3)
Equus caballus (3)
Macaca mulatta (3)
Canis lupus familiaris (3)
Gasterosteus aculeatus (2)
Aspergillus fumigatus (2)
Hordeum vulgare (2)
Triticum aestivum (2)
Pseudomonas aeruginosa (2)
Candida albicans (2)
Arabidopsis thaliana (2)
Hypsibius dujardini (2)
Schmidtea polychroa (2)
Mnemiopsis leidyi (2)
Amphimedon queenslandica (2)
Eisenia andrei (1)
Pomacentrus moluccensis (1)
Marsilea quadrifolia (1)
Scophthalmus maximus (1)

Organisms

Homo sapiens (65)
Mus musculus (42)
Terebella lapidaria (4)
Sternaspis cf. scutata NHMUK ANEA 2019 (4)
Melinna palmata (4)
Sthenelais limicola (4)
Cirriformia tentaculata (4)
Rattus norvegicus (4)
Colletotrichum higginsianum IMI 349063 (3)
Caudoviricetes (3)
Mammarenavirus lassaense (2)
Borreliella burgdorferi (2)
Branchiostoma floridae (2)
chicken gut metagenome (2)
Danio rerio (2)
Drosophila melanogaster (2)
Gallus gallus (2)
human feces metagenome (2)
mouse gut metagenome (2)
Candidatus Arthromitus sp. 'Pasteur' (1)
Candidatus Arthromitus sp. GSU (1)
Candidatus Arthromitus sp. SFB-1 (1)
Candidatus Arthromitus sp. SFB-2 (1)
Candidatus Arthromitus sp. SFB-co (1)
Candidatus Arthromitus sp. SFB-5 (1)
Candidatus Arthromitus sp. SFB-3 (1)
Candidatus Arthromitus sp. SFB-mouse-NYU (1)
Platynereis dumerilii (1)
Capitella teleta (1)
Callinectes sapidus reovirus 1 (1)

Repository

biostudies-arrayexpress (553)
pride (377)
ENA (328)
geo (85)
EGA (65)
MetaboLights (60)
PMR (30)
MassIVE (27)
iProX (10)
LINCS (10)
jPOST (5)
GPMDB (4)
Cell Collective (3)
PAXDB (1)
PeptideAtlas (1)

Tissue

Cell culture (68)
Plant cell (46)
Leaf (18)
Epithelial cell (16)
Brain (15)
Embryonic stem cell (12)
Lung (11)
Heart (10)
Root (9)
Liver (9)
Seedling (6)
Permanent cell line cell (6)
B cell (6)
Shoot (5)
Blood serum (5)
Stem cell (5)
Kidney (5)
T cell (5)
Blood (5)
Skin (4)
Macrophage (4)
Whole body (4)
Fibroblast (4)
Hepatocyte (4)
Brain microvascular endothelial cell (3)
Astrocyte (3)
Seed (3)
Gut (3)
Skeletal muscle (3)
Others (1)

Disease

Disease free (9)
Normal (7)
Breast cancer (6)
Non-small cell lung carcinoma (4)
Not Available (4)
Colon cancer (4)
Neuroblastoma (2)
Human immunodeficiency virus infectious disease (2)
Chronic lymphocytic leukemia (2)
Cervix carcinoma (2)
Parkinson's disease (2)
XCGD (1)
Sepsis (1)
Yersinia enterocolitica WAP infected (virulent) (1)
Moderate (1)
Systemic lupus erythematosus (1)
Microscopic Polyangiitis (1)
Cultured with Candida albicans CAF2-1 (1)
Malignant fibrous histiocytoma (1)
Follicular thyroid adenoma (1)
Acute monoblastic leukaemia (1)
Osteosarcoma (1)
Critical chronic obstructive pulmonary disease (1)
Small cell lung carcinoma (1)
Papillary thyroid carcinoma (1)
Non-diabetic (1)
Reference (1)
Leiomyosarcoma (1)
Unstable atherosclerotic plaque region (1)
Multiple myeloma (1)

Technology Type

Mass Spectrometry (377)
Shotgun proteomics (193)
Bottom-up proteomics (74)
Affinity purification coupled with mass spectrometry proteomics (65)
Data-dependent acquisition (53)
SWATH MS (29)
Mass spectrometry (28)
Data-independent acquisition (21)
NMR spectroscopy (20)
MEMA (10)
Fluorescence intensity (10)
Mass spectrometry assay (10)
Gel-based experiment (10)
SRM/MRM (5)
Top-down proteomics (5)
Chemical cross-linking coupled with mass spectrometry proteomics (5)
Affinity proteomics (4)
Metaproteomics (3)
NMR spectroscopy assay (2)
Mass spectrometry imaging (2)
Illumina 450K (1)
Illumina HiSeq 2500, ILLUMINA, Illumina HiSeq 2000 (1)
ILLUMINA, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000, Illumina Genome Analyzer II (1)
MSE (1)

Instrument Platform

Illumina NovaSeq 6000 (22)
NextSeq 500 (10)
Illumina HiSeq 2500 (7)
Illumina HiSeq 4000 (6)
Q Exactive (6)
Instrument (4)
Agilent G2565BA (3)
Illumina HiSeq 1500 (3)
Orbitrap Exploris 480 (3)
Orbitrap Fusion Lumos (3)
Nanostring GeoMx spatial profiler (2)
418 [Affymetrix] (2)
ScanArray Express HT [PerkinElmer] (2)
NextSeq 550 (2)
Illumina HiSeq 2000 (2)
Exactive Plus (2)
LTQ Orbitrap Velos (2)
Q Exactive Plus (2)
Cyclone (1)
GeneChip Fluidics Station 450 (1)
GeneChip Scanner 3000 (1)
GeneChip Hybridization Oven 640 (1)
Affymetrix GeneChip 7G 3000 Scanner (1)
GenePix Personal 4100A [Axon Instruments] (1)
Axon- GenePix4000B (1)
Illumina Genome Analyzer II (1)
Scanning hardware (1)
None (1)
- (1)
BGISEQ-500 (1)

Publication Date

2022 (84)
2025 (76)
2010 (75)
2023 (74)
2026 (73)
2013 (70)
2016 (68)
2012 (65)
2024 (62)
2014 (58)
2011 (55)
2015 (54)
2021 (52)
2019 (47)
2020 (43)
2018 (38)
2009 (32)
2008 (30)
2017 (28)
2007 (20)
2006 (8)
2005 (7)

UNIPROT ID/AC

O10J1_HUMAN (1)
SERP1_HUMAN (1)
TM267_HUMAN (1)
NT2NB_HUMAN (1)
CTAG2_HUMAN (1)
PAGE1_HUMAN (1)
CE058_HUMAN (1)
E9PLD3_HUMAN (1)
LY6K_HUMAN (1)
GAGE1_HUMAN (1)
CD320_HUMAN (1)
STMP1_HUMAN (1)
CDT1_HUMAN (1)
MOT6_HUMAN (1)
SSRB_HUMAN (1)
MF14A_HUMAN (1)
TMM69_HUMAN (1)
R51A1_HUMAN (1)
J3KT52_HUMAN (1)
MUS81_HUMAN (1)
PROK2_HUMAN (1)
9606.ENSP00000401018 (1)
AURKC_HUMAN (1)
OST4_HUMAN (1)
WFD11_HUMAN (1)
TM50A_HUMAN (1)
TM2D3_HUMAN (1)
SIX1_HUMAN (1)
H3BLT4_HUMAN (1)
Z780B_HUMAN (1)

CHEBI ID

CHEBI:30769 (19)
CHEBI:16737 (19)
CHEBI:15428 (18)
CHEBI:16919 (18)
CHEBI:15366 (17)
CHEBI:16977 (17)
CHEBI:32816 (17)
CHEBI:30751 (16)
CHEBI:16414 (16)
CHEBI:15971 (16)
CHEBI:18012 (16)
CHEBI:15354 (16)
CHEBI:17754 (16)
CHEBI:17191 (15)
CHEBI:17295 (15)
CHEBI:422 (15)
CHEBI:15891 (15)
CHEBI:18050 (14)
CHEBI:17368 (14)
CHEBI:25017 (14)
CHEBI:17895 (13)
CHEBI:17203 (13)
CHEBI:16015 (13)
CHEBI:15741 (13)
CHEBI:16857 (12)
CHEBI:17568 (12)
CHEBI:17234 (12)
CHEBI:25094 (12)
CHEBI:17154 (12)
CHEBI:16643 (11)

Metabolite Name

Creatinine (18)
Taurine (17)
Creatine (16)
Hypoxanthine (14)
Glycine (14)
Xanthine (14)
Choline (13)
Glutathione (13)
Glutaric acid (12)
Glycerol (12)
Citric acid (11)
Palmitic acid (11)
Uracil (11)
Ornithine (11)
Adenine (11)
L-alanine (10)
Trigonelline (10)
Isocitric acid (10)
Linoleic acid (10)
Myristic acid (10)
L-Histidine (10)
Acetaminophen (10)
Phosphorylcholine (10)
Saccharopine (10)
L-Lysine (10)
Propionic acid (10)
Homovanillic acid (9)
Pyruvic acid (9)
Leucine (9)
Thymine (9)

First Public Date

2013 (79)
2026 (35)
2024 (33)
2014 (29)
2025 (28)
2022 (27)
2023 (23)
2019 (20)
2016 (17)
2020 (13)
2021 (12)
2017 (7)
2018 (3)
2015 (2)

Classification

viruses (72)
bacteria (2)
protozoa (1)

Modification

4x(15)N labeled L-arginine (1)

Study type

Transcription profiling by array (344)
Comparative genomic hybridization by array (63)
RNA-seq of coding RNA (53)
Unknown experiment type (15)
RNA-seq of coding RNA from single cells (15)
Methylation profiling by array (12)
Transcription profiling by RT-PCR (7)
ChIP-seq (7)
Methylation profiling by high throughput sequencing (5)
Animal - High-throughput sequencing (3)
ChIP-chip by array (3)
Spatial transcriptomics by high-throughput sequencing (3)
ChIP-chip by tiling array (2)
Human - High-throughput sequencing (2)
Other (2)
Proteomic profiling by array (2)
RNA-seq of non coding RNA (2)
ChIP-chip by SNP array (1)
Transcription profiling by SAGE (1)
One-color microarray (1)
Human - Single-cell sequencing (1)
Cell line - One-color microarray (1)
Transcription profiling by tiling array (1)
Genotyping by array (1)
ATAC-seq (1)
Exome sequencing (1)
ScATAC-seq (1)
DNA-seq (1)
RNA-seq of total RNA (1)

Release Date

2022 (746)
2025 (736)
2023 (700)
2024 (682)
2021 (600)
2020 (439)
2019 (336)
2018 (227)
2017 (204)
2016 (204)
2015 (181)
2014 (146)
2013 (141)
2026 (119)
2012 (118)
2010 (106)
2011 (96)
2009 (51)
2008 (43)
2007 (27)
2006 (13)
2005 (10)
2004 (10)
2001 (5)
1999 (3)
2000 (2)
1998 (2)
2003 (1)
2002 (1)
1997 (1)

Lab affiliation

Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (32)
Merck (6)
Department of Biological Sciences, University of Alberta (5)
Translational Biomarker Group, University of Geneva, Geneva, Switzerland (4)
Plant Physiology Group Westfälische WIlhelms-Universität Münster Germany (3)
Max Perutz Labs, Campus Vienna Biocenter 5, 1030 Vienna (3)
Quantitative Proteomics & Proteome Center Tuebingen Interfaculty Institute for Cell Biology University of Tuebingen Tuebingen Germany (3)
Department of Molecular Biology and Genetics Cornell University 201 Biotechnology 526 Campus Road Ithaca, NY 14853 (2)
Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, 8093 Zurich, Switzerland Faculty of Science, University of Zurich, 8006 Zurich, Switzerland (2)
Faculty of Biology & Biotechnology Ruhr-University Bochum D-44780 Bochum Germany (2)
1. Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, 8093 Zurich, Switzerland 2. Faculty of Science, University of Zurich, 8006 Zurich, Switzerland (2)
Institute of Molecular Biology, Academia Sinica (2)
Academia Sinica, Institute of Biological Chemistry (2)
Weill Cornell Medical College in Qatar (2)
Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China (2)
Max Perutz Labs, Vienna BioCenter, University of Vienna Dr. Bohr-Gasse 9/5, 1030 Vienna, Austria (2)
Neurologische Klinik und Poliklinik des Universitätsklinikums Neurology Josef-Schneider-Straße 11 97080 Würzburg Germany (2)
IBC R602,128, Academia Road Sec. 2, Nankang, Taipei 115, Taiwan (2)
Institute of Science and Technology Austria (ISTA) (2)
Key Laboratory of Zoonosis of Liaoning Province, College of Animal Science & Veterinary Medicine, Shenyang Agricultural University, Shenyang, P.R. China (2)
University of Hohenheim, Institute of Animal Science, Stuttgart, Germany (2)
Max Perutz Labs, Vienna Biocenter Campus (VBC), Dr.-Bohr-Gasse 9, 1030, Vienna, Austria. (2)
Institute of Biophysics, Chinese Academy of Sciences (2)
IRIC-Université de Montréal (2)
Basic Immune System of Plants / Protein Mass Spectrometry Max Planck Institute for Plant Breeding Research Carl-von-Linne-Weg 10, 50829 Cologne, Germany (2)
Interfaculty Institute for Microbiology and Infection Medicine Tübingen Eberhard-Karls Universität Tübingen Auf der Morgenstelle 28 72072 Tübingen (2)
1) Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Switzerland 2) Faculty of Science, University of Zurich, Zurich, Switzerland (2)
Beijing Ditan Hospital, Capital Medical University (1)
Corelabs, King Abdullah University of Science and Technology, Thuwal 23500-6900, Kingdom of Saudi Arabia (1)
Sektion of Cellular and Molecular Microbiology Interfaculty Institute of Microbiology and Infection Medicine University of Tübingen Germany (1)

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Transcription profiling of mouse reveals induction of intestinal Th17 cells by segmented filamentous bacteria

The gastrointestinal tract of mammals is inhabited by hundreds of distinct species of commensal microorganisms that exist in a mutualistic relationship with the host. The process by which the commensal microbiota influence the host immune system is poorly understood. We show here that colonization o...

ORGANISM(S): Mus musculus

2009-11-10 | E-GEOD-18348 | biostudies-arrayexpress

Naturally transmitted segmented filamentous bacteria segregate with diabetes protection in NOD mice

Vertebrates typically harbor a rich gastrointestinal microbiota, which has co-evolved with the host over millennia and is essential for several of its physiological functions, in particular maturation of the immune system. Recent studies have highlighted the importance of a single bacterial species,...

ORGANISM(S): Mus musculus

2011-06-09 | E-GEOD-29806 | biostudies-arrayexpress

Segmented filamentous bacteria prevent and cure rotavirus infection

PRJEB34489 | ENA

Segmented filamentous bacteria prevent and cure rotavirus infection

PRJEB34133 | ENA

Segmented filamentous bacteria prevent and cure rotavirus infection

PRJEB34108 | ENA

Symbiotic lifestyle of segmented filamentous bacteria (SFB) revealed by single-cell genomics

PRJNA70149 | ENA

Segmented Filamentous Bacteria from chicken

Segmented Filamentous Bacteria from chicken Genome sequencing and assembly