Specific pathogen-free

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Unknown (1347)
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Organisms

Mus musculus (453)
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Arabidopsis thaliana (4)
Oncorhynchus mykiss (4)
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mouse gut metagenome (3)
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Mus musculus domesticus (2)
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gut metagenome (1)
Buchnera aphidicola (Schizaphis graminum) (1)
rat gut metagenome (1)
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Campylobacter jejuni subsp. jejuni 81-176 (1)
Edwardsiella ictaluri 93-146 (1)
Saccharum hybrid cultivar SP70-1143 (1)
Alternaria brassicicola (1)
Nuphar advena (1)
West Nile virus (1)
Schistosoma japonicum (1)

Organisms

Mus musculus (214)
Rattus norvegicus (20)
mouse gut metagenome (17)
Gallus gallus (16)
Homo sapiens (16)
Sus scrofa (4)
Bacteria (4)
mouse metagenome (3)
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Salmonella enterica subsp. enterica serovar Typhimurium (2)
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feces metagenome (2)
unidentified (2)
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mouse skin metagenome (1)
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Repository

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biostudies-arrayexpress (519)
geo (134)
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pride (71)
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Tissue

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Pancreas (1)
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Disease

Normal (5)
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Inflammatory bowel disease (1)
Pseudomonas aeruginosa rsmA mutant infected (1)
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N/a (1)
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Bacterial infectious disease (1)
Irritable bowel syndrome (1)
Duchenne muscular dystrophy (1)
Alzheimer's disease (1)

Technology Type

Mass Spectrometry (73)
Mass spectrometry (66)
Shotgun proteomics (46)
Bottom-up proteomics (17)
Mass spectrometry assay (16)
Data-dependent acquisition (8)
DiaPASEF (3)
Data-independent acquisition (3)
NMR spectroscopy (2)
ESI (2)
HDMSE (2)
Affinity purification coupled with mass spectrometry proteomics (2)
NMR spectroscopy assay (1)
All-ion fragmentation (1)
SWATH MS (1)
SRM/MRM (1)
Gel-based experiment (1)
Top-down proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (21)
Illumina MiSeq (11)
Illumina HiSeq 2500 (9)
NextSeq 500 (9)
Illumina HiSeq 2000 (8)
Illumina HiSeq 4000 (8)
Illumina NovaSeq X (5)
GenePix Professional 4200A [Axon Instruments] (3)
NextSeq 550 (3)
Agilent G2565BA (2)
Axon GenePix 4000B scanning hardware (2)
DNBSEQ-T7 (2)
Illumina HiSeq 1500 (2)
NaN (1)
10x Genomics Chromium controller; Agilent 2100 Bioanalyzer and Qubit fluorometer (Thermo Fisher) for QC (1)
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QuantSeq 3’ mRNA-Seq Library Prep Kit FWD (Lexogen Gmbh, Vienna, Austria) (1)
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2100 Bioanalyzer (Agilent, CA, USA), Qubit 2.0 (Invitrogen, Germany) (1)
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Publication Date

2014 (85)
2015 (66)
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2005 (10)
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2006 (4)
2003 (1)

CHEBI ID

CHEBI:17368 (23)
CHEBI:16708 (22)
CHEBI:15741 (22)
CHEBI:16704 (22)
CHEBI:16750 (21)
CHEBI:17568 (21)
CHEBI:15891 (21)
CHEBI:16919 (21)
CHEBI:17596 (21)
CHEBI:16335 (20)
CHEBI:30769 (20)
CHEBI:17562 (19)
CHEBI:17154 (19)
CHEBI:32816 (19)
CHEBI:16737 (19)
CHEBI:15756 (19)
CHEBI:18257 (18)
CHEBI:15428 (18)
CHEBI:17821 (18)
CHEBI:16196 (18)
CHEBI:16235 (18)
CHEBI:7916 (18)
CHEBI:30915 (18)
CHEBI:16566 (17)
CHEBI:18211 (17)
CHEBI:28865 (17)
CHEBI:17351 (17)
CHEBI:30805 (16)
CHEBI:16040 (16)
CHEBI:17748 (16)

Metabolite Name

Taurine (25)
Thymine (20)
Uracil (19)
Creatinine (19)
L-Valine (18)
L-Phenylalanine (18)
Hypoxanthine (18)
L-Lysine (17)
L-Proline (17)
Cytosine (17)
Adenine (17)
Uridine (17)
L-Tyrosine (17)
Sphingosine (16)
L-Histidine (16)
Guanosine (16)
Creatine (16)
L-Isoleucine (16)
L-Leucine (16)
Inosine (16)
Sphinganine (15)
Xanthine (15)
Ornithine (14)
Riboflavin (14)
L-Serine (14)
Glycerophosphocholine (14)
Choline (13)
Adenosine (13)
L-Tryptophan (13)
L-Glutamine (13)

First Public Date

2026 (82)
2025 (77)
2024 (62)
2014 (47)
2020 (41)
2023 (40)
2022 (39)
2015 (33)
2021 (32)
2018 (20)
2019 (19)
2017 (16)
2013 (11)
2016 (7)
2011 (1)

Classification

bacteria (8)
fungi (2)
viruses (2)

Study type

Transcription profiling by array (352)
RNA-seq of coding RNA (75)
ChIP-seq (11)
Comparative genomic hybridization by array (10)
RNA-seq of coding RNA from single cells (10)
RNA-seq of non coding RNA (9)
DNA-seq (7)
Animal - High-throughput sequencing (5)
RNA-seq of total RNA (5)
Transcription profiling by RT-PCR (4)
Methylation profiling by high throughput sequencing (4)
Unknown experiment type (3)
Transcription profiling by tiling array (3)
Other (3)
Transcription profiling by SAGE (2)
Animal - One-color microarray (2)
ChIP-chip by tiling array (2)
Animal - Single-cell sequencing (2)
MicroRNA profiling by array (2)
Cell line - One-color microarray (1)
High-throughput sequencing (1)
ChIP-chip by array (1)
Bisulfite-seq (1)
RIP-seq (1)
Methylation profiling by array (1)
CUT&RUN (1)
Genotyping by high throughput sequencing (1)

Release Date

2022 (173)
2023 (157)
2021 (140)
2024 (132)
2020 (127)
2025 (126)
2014 (110)
2015 (100)
2018 (93)
2019 (92)
2013 (88)
2017 (78)
2016 (78)
2011 (73)
2012 (60)
2010 (60)
2008 (44)
2009 (38)
2026 (31)
2005 (17)
2007 (10)
2006 (10)
2003 (8)
2004 (7)
2002 (5)
1998 (3)
2001 (2)
2000 (2)
1999 (2)

Lab affiliation

Clinical Division of Fish Medicine, University of Veterinary Medicine, Vienna, Austria (3)
Reproductive Medicine Center, Department of Obstetrics and Gynecology, The First Affiliated Hospital of Anhui Medical University, No.218 Jixi Road, Hefei 230022, China (2)
Acupuncture and Tuina School/Third Teaching Hospital, Chengdu University of Traditional Chinese Medicine (2)
Philip Morris International R&D, Philip Morris Products S.A., Quai Jeanrenaud 5, 2000 NeuchÃƒÂ¢tel, Switzerland (part of Philip Morris International group of companies) (2)
College of Pharmacy, Research Institute of Pharmaceutical Sciences, Kyungpook National University (2)
State University of Rio de Janeiro (1)
Lehrstuhl für Ernährungsphysiologie, Technische Universität München (TUM), Gregor-Mendel-Str. 2, 85354 Freising, Germany; Phone: +498161-71-2385 (1)
NHC Key Laboratory of Diagnosis and Treatment on Brain Functional Diseases, The First Affiliated Hospital of Chongqing Medical University, 1 Youyi Road, Yuzhong District, Chongqing 400016, China; (1)
Hans Merensky Chair in Avocado Research, Department of Biochemistry, Genetics and Microbiology, Faculty of Natural and Agricultural Sciences, Forestry and Agricultural Biotechnology Institute, University of Pretoria, Pretoria 0028, South Africa (1)
Forschungszentrum Juelich ZEA-3 Analytics (1)
1) Department II of Internal Medicine and Center for Molecular Medicine Cologne, University of Cologne, Faculty of Medicine and University Hospital Cologne, Cologne, Germany 2) CECAD, University of Cologne, Faculty of Medicine and University Hospital Cologne, Cologne, Germany (1)
Department of Clinical Infection, Microbiology, and Immunology; Institute for Infection, Veterinary, and Ecological Sciences (IVES), University of Liverpool, L69 7ZB, Liverpool, United Kingdom. (1)
Department of Microbial Proteomics, Institute for Microbiology, University of Greifswald, Greifswald, Germany (1)
Nanobio Measurement Group, Division of Biomedical Metrology, Korea Research Institute of Standards and Science (KRISS), Daejeon 34113, Republic of Korea (1)
University of Guelph, Department of Molecular and Cellular Biology (1)
Institute for Microbiology, Department of Microbial Proteomics, University of Greifswald, Greifswald, Germany (1)
IZSAM (1)
Proteomics and Metabolomics research program, Basic research department, Children's Cancer Hospital 57357 (CCHE-57357), Cairo, Egypt (1)
Department of Parasitology, Faculty of Science, Charles University, BIOCEV, Vestec, Czech Republic. (1)
Department of Molecular and Cellular Biology, University of Guelph, Guelph, Ontario, Canada, N1H 1N8 (1)
Department of Medical Biochemistry and Cell Biology University of Gothenburg Sweden (1)
Newcastle University Biosciences Institute, UK (1)
Department of Molecular and Cellular Biology, University of Guelph (1)
University of Liverpool, Musculoskeletal Biology (1)
Mass Spectrometry Laboratory, Institut Jacques Monod, UMR 7592, Univ Paris Diderot, CNRS, Sorbonne Paris Cité, F-75205 Paris, France (1)
University of Manchester, Newcastle University (1)
Institut für Medizinische Mikrobiologie und Hygiene Universitätsklinikum Tübingen Elfriede-Aulhorn-Str. 6, 72076 Tübingen Germany (1)
Osaka Metropolitan University Graduate School of Medicine (1)
Cellzome - a GSK company Meyerhofstrasse 1, 69117 HEIDELBERG (1)
University of Greifswald, Institute of Microbiology, Greifswald, Germany (1)

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Serum metabolome of specific-pathogen-free mice fed with five distinct rodent diets with varying fiber content and source.

Not available

ORGANISM(S): Mus musculus

ST002171 | MetabolomicsWorkbench

Cecal metabolome of specific-pathogen-free mice fed with five distinct rodent diets with varying fiber content and source.

Not available

ORGANISM(S): Mus musculus

ST002170 | MetabolomicsWorkbench

RNA-seq of fetal murine intestine, brain and placenta from germ-free vs specific pathogen free dams

The effects of maternal microbiota on the fetal development was investigated by comparing tissues of fetuses from germ-free (GF) and normal (SPF) murine dams using RNA-seq and non-targeted metabolomics (for metabolomics data, see: https://bmcmicrobiol.biomedcentral.com/articles/10.1186/s12866-022-02...

ORGANISM(S): Mus musculus

2022-12-17 | E-MTAB-12442 | biostudies-arrayexpress

Gallus gallus gallus strain:Specific Pathogen Free

Gallus gallus gallus strain:Specific Pathogen Free Raw sequence reads

PRJNA481209 | ENA

Single-cell RNA-seq of germ-free and specific pathogen-free small intestinal epithelium

PRJNA802047 | ENA

Expression data from germ free (GF) and specific pathogen free (SPF) mouse wound bed

PRJNA665983 | ENA

GNPS 3D Germ Free and Specific Pathogen Free Mice

A collection of metabolomes from organs of germ free and specific pathogen free mice.

ORGANISM(S): Mus Musculus (ncbitaxon:10090)

2016-07-20 | MSV000079949 | GNPS

Baseline CD11b+ CD115+ Co-housed vs specific pathogen free monocytes

PRJNA996985 | ENA

Symbiotic microbiota reconstruction in specific pathogen free mice exposed to “dirty” breeding facilities

PRJEB126110 | ENA

Global hepatic gene expression data from germ free and specific pathogen free male mice.

Liver clock regulates transcription of hepatic genes in response to feeding. To explore the possibility that the microbiome influences this process, we measured the liver transcriptome in normal mice (Specific Pathogen Free or SPF mice) and compared it to the transcriptome in mice lacking microbiota...

ORGANISM(S): Mus musculus

2016-02-20 | E-GEOD-71628 | biostudies-arrayexpress

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2709 Results

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