Bailey R R - OmicsDI

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Unknown (2248)
Transcriptomics (180)
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Homo sapiens (117)
Mus musculus (62)
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Repository

biostudies-arrayexpress (202)
pride (38)
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Tissue

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Renal Wilms' tumor (1)
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Stomach cancer (1)
Synovial sarcoma (1)

Technology Type

Mass Spectrometry (38)
Shotgun proteomics (17)
Bottom-up proteomics (11)
Data-dependent acquisition (8)
Affinity purification coupled with mass spectrometry proteomics (6)
Mass spectrometry (5)
Data-independent acquisition (3)
Mass spectrometry assay (2)
DiaPASEF (2)
Illumina HiSeq 4000, ILLUMINA (1)
Illumina Omni 2.5, Illiumina Omni 2.5 (1)
NMR spectroscopy (1)
HDMSE (1)
Immunopeptidomics (1)
Top-down proteomics (1)

Instrument Platform

LTQ Orbitrap Velos (12)
Illumina HiSeq 2500 (8)
Illumina HiSeq 2000 (4)
Illumina NovaSeq 6000 (2)
Liquid Chromatography MS - positive - reverse phase (2)
Illumina Genome Analyzer IIx (1)
Q Exactive Plus (1)
TSQ Quantum Ultra (1)
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Liquid Chromatography MS - negative - reversed-phase-c18 (1)
Liquid Chromatography MS - positive - reversed-phase-c18 (1)
Q Exactive (1)
Xevo TQ MS (Waters) (1)

Publication Date

2014 (46)
2013 (45)
2011 (32)
2010 (21)
2012 (18)
2015 (15)
2009 (13)
2024 (10)
2026 (9)
2021 (9)
2025 (8)
2022 (7)
2020 (6)
2008 (6)
2018 (5)
2017 (5)
2016 (5)
2019 (4)
2023 (3)

UNIPROT ID/AC

A0A024RC46 (12)
A0A0A0MR66 (12)
A5A3E0 (12)
A6NL93 (12)
A9IYQ1 (12)
B4DRV9 (12)
B4DY08 (12)
B4E3A4 (12)
B5MBZ0 (12)
B7ZME8 (12)
B8ZZQ6 (12)
C9JZR2 (12)
E7EVA0 (12)
E9PRE2 (12)
G5E972 (12)
G8JLB6 (12)
H0YAB3 (12)
H0YJH7 (12)
H7BY16 (12)
H7BZL0 (12)
I3L4N8 (12)
J9JID7 (12)
O00193 (12)
O00264 (12)
O00267 (12)
O00273 (12)
O00567 (12)
O00767 (12)
O14497 (12)
P05067 (1)

ENSEMBL ID

ENSG00000247315 (10)
ENSG00000170477 (4)
ENSG00000204131 (2)
ENSG00000147251 (1)

CHEBI ID

CHEBI:15428 (4)
CHEBI:16449 (4)
CHEBI:17234 (4)
CHEBI:22653 (4)
CHEBI:24898 (4)
CHEBI:25094 (4)
CHEBI:26271 (4)
CHEBI:26986 (4)
CHEBI:27266 (4)
CHEBI:28044 (4)
CHEBI:28757 (4)
CHEBI:30769 (4)
CHEBI:6650 (4)
CHEBI:15356 (3)
CHEBI:15741 (3)
CHEBI:15891 (3)
CHEBI:15927 (3)
CHEBI:16010 (3)
CHEBI:16199 (3)
CHEBI:16335 (3)
CHEBI:16675 (3)
CHEBI:16750 (3)
CHEBI:16811 (3)
CHEBI:17015 (3)
CHEBI:17154 (3)
CHEBI:17268 (3)
CHEBI:17562 (3)
CHEBI:17568 (3)
CHEBI:17596 (3)
CHEBI:17822 (3)

Metabolite Name

Acetylcarnitine (3)
Adenosine (3)
Campesterol (3)
Riboflavin (3)
2-aminoadipate (2)
2-hydroxyglutarate (2)
4-guanidinobutanoate (2)
Alanine (2)
Asparagine (2)
Betaine (2)
Biotin (2)
Choline (2)
Citric acid (2)
Creatine (2)
Creatinine (2)
Cytidine (2)
Decanoylcarnitine (2)
Fructose (2)
Glucose (2)
Guanine (2)
Guanosine (2)
Imidazolepropionic acid (2)
Inosine (2)
Isoleucine (2)
L-Methionine (2)
Leucine (2)
Linoleic acid (2)
Lysine (2)
Methionine (2)
N-acetylarginine (2)

First Public Date

2022 (1)
2020 (1)
2018 (1)
2016 (1)

Modelling Approach

Ordinary differential equation model (1)

Lab affiliation

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)
Technical University of Munich, Germany (2)
Cambridge Centre for Proteomics, Department of Biochemistry, University of Cambridge, Cambridge, CB2 1QR UK (1)
Cambridge Institute of Therapeutic Immunology & Infectious Disease (CITIID), Jeffrey Cheah Biomedical Centre Cambridge Biomedical Campus, University of Cambridge, Cambridge, CB2 0AW, UK. (1)
Center for Integrative Genomics University of Lausanne Quartier Sorge 1015 Lausanne Switzerland (1)
Centre for Proteomic Research B85, Life Sciences Building University of Southampton University Road Highfield Southampton, Hants. SO17 1BJ United Kingdom (1)
Centre for Proteomic Research B85, Life Sciences Building, University of Southampton, University Road , Highfield Southampton, Hants. SO17 1BJ United Kingdom (1)
Centre for Proteomic Research B85, Life Sciences Building University of Southampton University Road Highfield Southampton, Hants. SO17 1BJ United Kingdom (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich, Germany (1)
Chair of Proteomics and Bioanalytics, Technische Universitaet Muenchen (1)
Chair of Proteomics and Bioanalytics, Technische Universität München, Germany (1)
Department of Biochemistry and Molecular Biology, Biomedicine Discovery Institute, Monash University, Clayton 3800, Victoria, Australia (lab head) (1)
Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02215, USA., Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA (1)
Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology (1)
Department of Molecular Microbiology, Washington University in St. Louis, St. Louis, MO, USA (1)
Deputy Head (Research), Department of Biochemistry and Molecular Biology Head Immunoproteomics Laboratory Infection and Immunity Program Room 214, level 2, 15 Innovation Walk Monash Biomedicine Discovery Institute Monash University Clayton 3800 Victoria Australia (1)
Deputy Head (Research), Department of Biochemistry and Molecular Biology, Head Immunoproteomics Laboratory, Infection and Immunity Program, Monash Biomedicine Discovery Institute, Monash University, Victoria, Australia (1)
Evolutionary Genomics Section, Globe Institute, University of Copenhagen (1)
Faculty of Medicine & Health, The University of Sydney, Camperdown, NSW 2006, Australia. (1)
Goethe university, Institute of Biochemistry II (1)
Group Leader, Francis Crick Institute, London, UK (1)
Head of Discovery Proteomics Facility, Oxford (1)
ISSCOR / UCSD (1)
Indiana University School of Medicine, Dept of Pediatrics; Herman B Wells Center for Pediatric Research (1)
PROF. DR. SACHA BAGINSKY Lehrstuhl für Biochemie der Pflanzen Gebäude ND 3/126 Universitätsstraße 150, 44801 Bochum (1)
PROFESSOR JOHN RASKO, AO BSc(Med), MBBS(Hons), PhD, MAICD, FFSc(RCPA), FRCPA, FRACP, FAHMS Head of Department, Cell & Molecular Therapies, Royal Prince Alfred Hospital, Professor, Faculty of Medicine & Health, The University of Sydney, Head, Gene and Stem Cell Therapy Program, Centenary Institute. Level 2, Building 89, Missenden Road, CAMPERDOWN NSW 2050, AUSTRALIA Tel 02 95656160 | Fax 02 9565 6101 | j.rasko@centenary.org.au‌ (1)
Plant Sciences Department, Rothamsted Research, Harpenden, AL5 2JQ, UK (1)
Professor of Biochemistry Director,Institute of Biochemistry II, Group leader, Buchmann Institute for Molecular Life Sciences University Hospital of Goethe University Frankfurt (1)
Professor, Harvard Medical School (1)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (1)

IsPrivate

False (1)

Modification

4-dinitrophenyl modified residue (1)

Study type

Transcription profiling by array (137)
RNA-seq of coding RNA (23)
ChIP-seq (18)
Methylation profiling by array (4)
Transcription profiling by SAGE (3)
Transcription profiling by tiling array (2)
Comparative genomic hybridization by array (2)
MicroRNA profiling by array (2)
Proteomic profiling by array (2)
Methylation profiling by high throughput sequencing (2)
Unknown experiment type (1)
High-throughput sequencing (1)
Genotyping by array (1)
Transcription profiling by RT-PCR (1)
Other (1)
RNA-seq of total RNA (1)
RNA-seq of non coding RNA (1)

Release Date

2021 (238)
2022 (229)
2025 (220)
2023 (217)
2024 (211)
2020 (182)
2018 (176)
2014 (131)
2019 (116)
2015 (113)
2013 (100)
2017 (95)
2016 (94)
2012 (66)
2011 (62)
2010 (56)
2009 (43)
2026 (30)
2008 (24)
2007 (16)
2006 (11)
2005 (8)
2004 (7)
2003 (2)
1999 (2)
2002 (1)

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Identification of neoantigens in oesophageal adenocarcinoma

We present data from tissues of seven oesophageal adenocarcinomas of CD4 and CD8 T cell epitopes eluted from the cell surface using mass spectrometry (immunopeptidomics) of presented HLA bound peptides.This dataset forms part of the publication:Nicholas, B., Bailey, A., McCann, K.J., Wood, O., Walke...

ORGANISM(S): Homo sapiens (Human)

2022-09-27 | PXD031108 | Pride

RNA-seq to investigate differentially expressed genes in KPC mouse PDAC treated with CSF-1R small molecule inhibitor AZD7507 and/or the CXCR2 small molecule inhibitor AZD5069

Recently, we defined four subtypes of pancreatic cancer that are associated with distinct histopathological characteristics and differential survival, namely, Squamous, Pancreatic Progenitor, Immunogenic, and ADEX (Bailey et al 2016, Nature). We also found that loss of CXCR2 was associated with a sw...

ORGANISM(S): Mus musculus

2018-05-01 | E-MTAB-6620 | biostudies-arrayexpress

Differentially expressed genes in KPC Cxcr2 KO vs KPC mouse PDAC

Recently, Bailey et al (2016, Nature) defined four subtypes of pancreatic cancer that are associated with distinct histopathological characteristics and differential survival, namely, Squamous, Pancreatic Progenitor, Immunogenic, and ADEX (Aberrantly Differentiated Endocrine eXocrine). We set out t...

ORGANISM(S): Mus musculus

2018-03-31 | E-MTAB-4659 | biostudies-arrayexpress

Pathological ribonuclease H1 causes R-loop depletion and aberrant DNA segregation in mitochondria.

Not available

S-EPMC4968715 | biostudies-literature

Dynamic nucleoplasmic and nucleolar localization of mammalian RNase H1 in response to RNAP I transcriptional R-loops.

Not available

S-EPMC5737507 | biostudies-literature

TRAIL-R deficiency in mice enhances lymph node metastasis without affecting primary tumor development.

Not available

S-EPMC2129237 | biostudies-literature

Does the wait for lumbar degenerative spinal stenosis surgery have a detrimental effect on patient outcomes? A prospective observational study.

Not available

S-EPMC4933598 | biostudies-literature

Bayesian reconstruction of P(r) directly from two-dimensional detector images via a Markov chain Monte Carlo method.

Not available

S-EPMC3627411 | biostudies-literature

Expression data from naM-CM-/ve and MPTP-exposed cholinergic transgenic mice

PD is the second most common neurodegenerative disease worldwide with growing prevalence. MPTP is a neurotoxin which causes the appearance of Parkinson's disease (PD) pathology. The involvement of the cholinergic system in PD has been identified decades ago and anti-cholinergic drugs were upon the...

ORGANISM(S): Mus musculus

2012-01-09 | E-GEOD-31458 | biostudies-arrayexpress

mirTarRnaSeq: An R/Bioconductor Statistical Package for miRNA-mRNA Target Identification and Interaction Analysis.

Not available

S-EPMC9191533 | biostudies-literature

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