Fox S S - OmicsDI

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Unknown (7166)
Transcriptomics (441)
Genomics (205)
Proteomics (71)
Metabolomics (13)
Genomic (3)
Models (1)
Other (1)
Multiomics (1)

Organisms

Homo sapiens (265)
Mus musculus (189)
Drosophila melanogaster (23)
Saccharomyces cerevisiae (21)
Arabidopsis thaliana (20)
Caenorhabditis elegans (18)
Glycine max (14)
Rattus norvegicus (10)
Medicago truncatula (9)
Streptomyces venezuelae (9)
Danio rerio (6)
Schizosaccharomyces pombe (5)
Macaca mulatta (4)
Anopheles gambiae (4)
Escherichia coli (4)
Vulpes vulpes (4)
Lolium perenne (3)
Staphylococcus aureus (3)
Solanum lycopersicum (3)
Metallosphaera sedula (3)
Amphimedon queenslandica (2)
Capra hircus (2)
Papio anubis (2)
Strongylocentrotus purpuratus (2)
Spodoptera frugiperda (2)
Chlamydomonas reinhardtii (2)
Fragilariopsis cylindrus (2)
Streptomyces coelicolor A3(2) (2)
Hordeum vulgare (2)
Solanum tuberosum (2)

Organisms

Homo sapiens (7)
Saccharomyces cerevisiae (5)
Mus musculus (4)
Metallosphaera sedula (1)

Repository

biostudies-arrayexpress (575)
pride (60)
EGA (41)
ENA (20)
geo (12)
MetaboLights (11)
MassIVE (5)
jPOST (4)
dbGaP (3)
GNPS (2)
BioModels (1)
iProX (1)

Tissue

Cell culture (18)
Brain (6)
Epithelial cell (4)
Liver (3)
Skin (3)
Blood (2)
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Hepatocyte (2)
Peripheral blood mononuclear cell (2)
Tooth (2)
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B cell (1)
Bone (1)
Cell suspension culture (1)
Colostrum (1)
Dentin (1)
Endometrial cancer cell line (1)
Fibroblast (1)
Gastrointestinal stromal tumor cell (1)
HEK-293T cell (1)
Hair (1)
Hair shaft (1)
HeLa cell (1)
Kidney (1)
Kidney cell (1)
Kidney epithelial cell (1)
Lung (1)
Macrophage (1)
Permanent cell line cell (1)
T cell (1)

Disease

Malignant neoplasm of ovary (5)
Colon cancer (4)
Breast cancer (3)
Normal (2)
Disease free (2)
Parkinson's disease (2)
HIV encephalitis (1)
Moderate (1)
Osteosarcoma (1)
Melanoma (1)
(-)ssRNA virus infectious disease (1)
COVID-19 (1)
Cancer (1)
Endometrial cancer (1)
Human immunodeficiency virus infectious disease (1)
Inflammatory bowel disease (1)
Oral squamous cell carcinoma (1)
Severe acute respiratory syndrome (1)

Technology Type

Mass Spectrometry (60)
Shotgun proteomics (35)
Affinity purification coupled with mass spectrometry proteomics (10)
Bottom-up proteomics (9)
Mass spectrometry (8)
Data-dependent acquisition (5)
SWATH MS (5)
Top-down proteomics (5)
Mass spectrometry assay (2)
Gel-based experiment (2)
SRM/MRM (2)
NMR spectroscopy (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
Data-independent acquisition (1)
Glycoproteomics (1)
HDMSE (1)
Immunopeptidomics (1)

Instrument Platform

Illumina HiSeq 2500 (30)
Illumina HiSeq 2000 (30)
Illumina NovaSeq 6000 (19)
NextSeq 500 (10)
Illumina Genome Analyzer II (4)
Illumina HiSeq 4000 (4)
Q Exactive HF (4)
Q Exactive (3)
NextSeq 2000 (2)
Illumina HiSeq 3000 (2)
Orbitrap Fusion Lumos (2)
UC Irvine HPC (1)
Bioanalyzer, Nanodrop, (1)
Illumina-compatible library preparation equipment (1)
Monarch RNA purification column system (1)
Standard mammalian cell culture equipment (1)
Thermal cycler; magnetic separation rack; Qubit Fluorometer; Agilent TapeStation 4200 (1)
Microcentrifuge; magnetic separation rack; Qubit Flu/spectrophotometer; Agilent TapeStation 4200 (1)
Incubator shaker; spectrophotometer; Cmag measurement system; flow cytometer (1)
Element AVITI (1)
PureLink RNA Mini Kit (1)
Illumina TruSeq (1)
HiSeq 1500 (1)
ScanArray 4000 [PerkinElmer] (1)
GenePix Personal 4100A [Axon Instruments] (1)
NA (1)
Illumina HiSeq X (1)
HiSeq X Ten (1)
Illumina MiSeq (1)
NextSeq 550 (1)

Publication Date

2015 (102)
2014 (96)
2016 (82)
2013 (70)
2012 (51)
2010 (44)
2022 (29)
2011 (26)
2021 (23)
2025 (22)
2020 (20)
2026 (17)
2023 (15)
2018 (15)
2008 (14)
2024 (11)
2019 (9)
2017 (8)
2009 (7)
2007 (5)
2005 (4)
2004 (1)

UNIPROT ID/AC

A0FLQ6 (1)
A3QMC1 (1)
A3QMC2 (1)
A3QMC8 (1)
A3RMS7 (1)
A4LBC2 (1)
A4LBC3 (1)
A4UVJ6 (1)
A4UVJ7 (1)
A5HU89 (1)
A5HU98 (1)
A5HWB2 (1)
A5JYS0 (1)
A5JYS1 (1)
A5JYS4 (1)
A5JYS7 (1)
A5JYT6 (1)
A5JYW2 (1)
A5JYX4 (1)
A5JYX5 (1)
A5JYX6 (1)
A5JYY0 (1)
A5PEY3 (1)
A5Z2U3 (1)
A5Z2U5 (1)
A5Z2U6 (1)
A5Z2X2 (1)
A6PVA4 (1)
A7LPE5 (1)
A7LPE6 (1)

CHEBI ID

CHEBI:30769 (4)
CHEBI:15354 (3)
CHEBI:16643 (3)
CHEBI:16919 (3)
CHEBI:17368 (3)
CHEBI:29016 (3)
CHEBI:30915 (3)
CHEBI:70744 (3)
CHEBI:10093 (2)
CHEBI:1148 (2)
CHEBI:15428 (2)
CHEBI:15741 (2)
CHEBI:15843 (2)
CHEBI:15887 (2)
CHEBI:15901 (2)
CHEBI:15940 (2)
CHEBI:15956 (2)
CHEBI:16015 (2)
CHEBI:16040 (2)
CHEBI:16235 (2)
CHEBI:16335 (2)
CHEBI:16347 (2)
CHEBI:16349 (2)
CHEBI:16359 (2)
CHEBI:16467 (2)
CHEBI:16610 (2)
CHEBI:16704 (2)
CHEBI:16708 (2)
CHEBI:16737 (2)
CHEBI:16742 (2)

Metabolite Name

3-Hydroxymandelic acid (2)
Ajmaline (2)
Arginine (2)
Caffeate (2)
Chenodeoxycholic acid (2)
Deoxycholic acid (2)
Formononetin (2)
Glutathione (2)
LPC 18:1 (2)
LPC 18:3 (2)
Leucine (2)
Phenol (2)
Tabersonine (2)
Taurocholic acid (2)
Taurodeoxycholic acid (2)
Thymidine (2)
Tryptophan (2)
Valine (2)
Voacamine (2)
Yohimbine (2)
(+)-Abscisic acid (1)
(+)-Camphor (1)
(+)-Costunolide (1)
(+)-beta-Selinene (1)
(+)-trans-C75 (1)
(-)-11-Nor-9-carboxy-.DELTA.9-THC (1)
(-)-Catechin (1)
(-)-Jasmonic acid (1)
(-)-Syringaresinol-4-O-.beta.-D-glucopyranoside (1)
(.+/-.)-Vestitol (1)

IsPrivate

False (1)

First Public Date

2018 (3)
2017 (3)
2014 (3)
2025 (2)
2024 (2)
2021 (2)
2020 (2)
2022 (1)
2016 (1)
2015 (1)

Modelling Approach

Other (1)

Modification

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

Study type

RNA-seq of coding RNA (225)
ChIP-seq (111)
Transcription profiling by array (101)
RNA-seq of non coding RNA (31)
Methylation profiling by high throughput sequencing (25)
Transcription profiling by tiling array (17)
Other (10)
Cell line - High-throughput sequencing (6)
RNA-seq of total RNA (6)
Unknown experiment type (5)
ChIP-chip by tiling array (4)
Comparative genomic hybridization by array (4)
DNA-seq (4)
High-throughput sequencing (3)
Animal - High-throughput sequencing (2)
ChIP-chip by array (2)
Genotyping by array (2)
MicroRNA profiling by high throughput sequencing (2)
Single nucleus RNA sequencing (2)
Methylation profiling by array (2)
RNA-seq of coding RNA from single cells (2)
MNase-seq (1)
Plant - High-throughput sequencing (1)
Bisulfite-seq (1)
ATAC-seq (1)
Hi-C (1)
Ribo-seq (1)
MicroRNA profiling by array (1)
Proteomic profiling by array (1)
Genotyping by high throughput sequencing (1)

Release Date

2022 (762)
2021 (717)
2025 (672)
2023 (668)
2024 (653)
2020 (594)
2019 (487)
2018 (437)
2016 (421)
2015 (409)
2017 (375)
2014 (321)
2013 (261)
2012 (225)
2011 (189)
2010 (146)
2026 (105)
2009 (89)
2008 (61)
2007 (44)
2005 (22)
2006 (19)
2003 (14)
2004 (13)
2000 (9)
2002 (8)
1999 (7)
2001 (6)
1998 (4)
1997 (2)

Lab affiliation

Cancer Biology Department, Fox Chase Cancer Center, Philadelphia, PA, USA (4)
University of Mississippi (3)
Department of Neurological Sciences, University of Nebraska Medical Center, Omaha NE (2)
1.Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, 3010 Bern, Switzerland. 2.Department for BioMedical Research, University of Bern, 3008 Bern, Switzerland. 3. Conway Institute for Biomolecular and Biomedical Research, University College Dublin, Dublin D04 V1W8, Ireland. (1)
Academia Sinica Institute of Biological Chemistry(IBC), Dr. Shih-Hsiung Wu's lab, Taipei, Taiwan (R.O.C.) (1)
Assistant Professor Department of Medicine, Division of Endocrinology, Metabolism, and Nutrition Department of Pharmacology and Cancer Biology Duke University Medical Center (1)
Associate Professor Microbiology and Immunology Department Upstate Medical University Weiskotten Hall Rm. 2273 766 Irving Avenue Syracuse, NY 13210 Tel 315.464.5870 (1)
Associate professor, department of Biology. University of Rochester,NY, USA University of Rochester Mass Spectrometry Resource Laboratory, NY, USA ( lab head ) (1)
Avaxia Biologics, Inc. (1)
BioArCh, University of York, United Kingdom (1)
Brazilian Biosciences National Laboratory (LNBio), Brazilian Center for Research in Energy and Materials (CNPEM), Campinas, Sao Paulo, Brazil. (1)
Cambridge Centre for Proteomics, Department of Biochemistry, University of Cambridge, UK (1)
Cancer Biology Program, Fox Chase Cancer Center, Philadelphia, PA, USA (1)
Cancer Biology, Fox Chase Cancer Center, Philadelphia, Pennsylvania, United States (1)
Cancer Signaling & Microenvironment Program, Fox Chase Cancer Center, Philadelphia, Pennsylvania, United States (1)
Cancer Signaling and Epigenetics Program, Fox Chase Cancer Center, Philadelphia, Pennsylvania, United States (1)
Cancer Signaling and Microenvironment Program,Fox Chase Cancer Center, Philadelphia, PA, USA (1)
DAI Medicina di Laboratorio e Trasfusionale, ‘Federico II’University of Naples, 80131 Naples, Italy (1)
Department of Biochemistry, Emory School of Medicine, Atlanta, Georgia, USA (1)
Department of Biomedical and Clinical Sciences (BKV), Linköping University, Linköping, Sweden; Wallenberg Centre for Molecular Medicine (WCMM), Linköping University, Linköping, Sweden. (1)
Department of Cardiovascular and Metabolic Sciences, Lerner Research Institute, Cleveland Clinic Foundation, Cleveland, OH 44195, USA (1)
Department of Chemistry, Imperial College London, UK Chemical Glycobiology Laboratory, The Francis Crick Institute, London, UK (1)
Department of Chemistry, Imperial College London, UK; Chemical Glycobiology Laboratory, The Francis Crick Institute, London (1)
Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv 6997801, Israel (1)
Department of Molecular and Medical Genetics, Oregon Health and Science University, Portland, OR USA (1)
Department of Neurological Sciences, College of Medicine, University of Nebraska Medical Center, Omaha, NE 68198, USA (1)
Department of Pharmacology and Experimental Neuroscience, University of Nebraska Medical Center, 985800 University of Nebraska Medical Center, Omaha, NE 68198-5800, USA (1)
Department of Psychiatry, Seaver Autism Center for Research and Treatment, Mindich Child Health and Development Institute, Friedman Brain Institute, Alper Center for Neural Development and Regeneration, Icahn School of Medicine at Mount Sinai, USA (1)
Emory University School of Medicine Departments of Biochemistry and Neurology (1)
Forensic Science Laboratory, Chemcentre, Western Australia (1)

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Transcription profiling of silver fox brain selected for tame behavior vs non-selected silver fox

Comparison of brain gene expression between silver foxes selected for tame behavior and non-selected silver fox.

ORGANISM(S): Vulpes vulpes

2005-12-31 | E-MEXP-451 | biostudies-arrayexpress

FOX transcription factors are common regulators of Wnt/β-catenin signaling

The Wnt/β-catenin signaling pathway is a critical regulator of development and stem cell maintenance. Mounting evidence suggests that the context-specific outcome of Wnt signaling is determined by the collaborative action of multiple transcription factors, including members of the highly conserved f...

ORGANISM(S): Homo sapiens (Human)

2023-04-19 | PXD038811 | Pride

S-adenosylmethionine (SAM) changes DNA methylation patterns in prostate cancer cells

Genome-wide DNA methylation profiling of human PC3 invasive prostate cancer cell line treated with vehicle control (SAH, S-adenosylhomocysteine) and with SAM (S-adenosylmethionine) as well as of untreated human LNCaP non-invasive prostate cancer cell line. The Illumina Infinium 450k Human DNA Methyl...

ORGANISM(S): Homo sapiens

2015-03-01 | E-GEOD-62053 | biostudies-arrayexpress

Fox Insight: Most Bothersome Symptoms in Early-Stage Parkinson's Disease.

Not available

S-EPMC11998684 | biostudies-literature

Structural Analysis of Phosphorylation Proteoforms in a Dynamic Heterogeneous System Using Flash Oxidation Coupled In-Line with Ion Exchange Chromatography

Protein post-translational modifications (PTMs) are key modulators of protein structure and function that often change in a dynamic fashion in response to cellular stimuli. Dynamic post-translational modifications are very challenging to structurally characterize using modern techniques, including c...

ORGANISM(S): Gallus gallus (Chicken)

2023-01-16 | PXD037050 | Pride

Flash oxidation Ovalbumin Phosphoproteoforms Lc-fox

S-adenosylhomocysteine hydrolase over-expression does not alter S-adenosylmethionine or S-adenosylhomocysteine levels in CBS deficient mice.

Not available

S-EPMC6047060 | biostudies-literature

Protein S-Nitrosylation of host and viral proteins upon fibroblast infection with Human Cytomegalovirus

Human Cytomegalovirus (HCMV) is a ubiquitous pathogen that has co-evolved with its host and in doing so, is highly efficient in undermining antiviral responses that limit successful infections. As a result, HCMV infections are highly problematic in individuals with weakened or underdeveloped immune ...

ORGANISM(S): Homo sapiens (Human)

2020-07-03 | PXD019208 | Pride

Hcmv Protein s-nitrosylation Cytomegalovirus

A potential patient stratification biomarker for Parkinson´s disease based on LRRK2 kinase-mediated centrosomal alterations in peripheral blood-derived cells.

Not available

S-EPMC10774440 | biostudies-literature

Requirement for Shh and Fox family genes at different stages in sweat gland development

Sweat glands play a fundamental role in thermal regulation in man, but the molecular mechanism of their development remains unknown. To initiate analyses, we compared the model of Eda mutant Tabby mice, in which sweat glands were not formed, to wild-type mice. We inferred developmental stages and c...

ORGANISM(S): Mus musculus

2010-05-05 | E-GEOD-14907 | biostudies-arrayexpress

Structural and functional characterization of the N-terminus of Schizosaccharomyces pombe Cwf10

The spliceosome is a dynamic macromolecular machine that catalyzes the removal of introns from pre-mRNA to make mature message. Schizosaccharomyces pombe Cwf10 (homolog Saccharomyces cerevisiae Snu114 and of Human U5-116K), an integral member of the U5 snRNP, is a GTPase that shares sequence homolog...

ORGANISM(S): Schizosaccharomyces pombe

2013-09-25 | E-GEOD-47573 | biostudies-arrayexpress

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