Smith Y Y - OmicsDI

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Unknown (10651)
Transcriptomics (296)
Proteomics (248)
Metabolomics (218)
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Multiomics (3)
Genomic (2)
Models (1)

Organisms

Homo sapiens (208)
Mus musculus (100)
Caenorhabditis elegans (28)
Arabidopsis thaliana (11)
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Organisms

Mus musculus (3)
Homo sapiens (2)
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Repository

biostudies-arrayexpress (354)
MetaboLights (170)
pride (120)
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Tissue

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Disease

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Coronavirus infectious disease (1)
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Duchenne muscular dystrophy (1)
Fragile X syndrome (1)
Frontotemporal dementia and/or amyotrophic lateral sclerosis 6 (1)
Influenza (1)
Lysosomal storage disease (1)

Technology Type

Mass spectrometry (152)
Mass Spectrometry (120)
Shotgun proteomics (72)
Bottom-up proteomics (25)
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Affinity purification coupled with mass spectrometry proteomics (17)
Mass spectrometry assay (14)
Gel-based experiment (8)
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SWATH MS (5)
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HDMSE (2)
Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 2000, Illumina HumanOmni2-5M-8v1-1_B (1)
Illumina HiSeq 2500 (ILLUMINA), AB SOLiD System (ABI_SOLID) (1)
ZCall, HumanExome_12v1.1_A -GenCall (1)
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HumanOmniExpress-12 v1.1 BeadChip-GenCall (1)
Illumina HiSeq 2000, Illumina HiSeq 2000 (ILLUMINA) (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
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NMR spectroscopy assay (1)
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MSE (1)
Top-down proteomics (1)

Instrument Platform

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GC-MS (21)
NextSeq 500 (14)
GC MS (12)
Illumina HiSeq 2000 (8)
Illumina NovaSeq 6000 (7)
Illumina HiSeq 2500 (4)
Illumina HiSeq 4000 (4)
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Trizol (Invitrogen); FastPrep (MP Biochemicals) (2)
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GenePix Professional 4200A [Axon Instruments] (2)
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Ion Torrent Proton (2)
Agilent 7890A GC with 5975C inert XL MSD (2)
NaN (1)
10x Genomics Chromium controller; Agilent 2100 Bioanalyzer and Qubit fluorometer (Thermo Fisher) for QC (1)
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BD FACSAria cell sorter (viable-cell sorting); Countess III cell counter (Thermo Fisher; viability check) (1)
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418 [Affymetrix] (1)
Illumina NovaSeq X (1)
NextSeq 2000 (1)
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Illumina HiSeq 1000 (1)
Illumina MiSeq (1)
6110 Quadrupole LC/MS (1)

Publication Date

2011 (74)
2016 (64)
2022 (50)
2019 (47)
2013 (46)
2024 (45)
2023 (45)
2015 (45)
2021 (43)
2014 (43)
2012 (37)
2025 (36)
2020 (36)
2017 (36)
2010 (36)
2018 (33)
2026 (32)
2008 (16)
2007 (16)
2006 (10)
2009 (8)
2005 (5)
2004 (2)

UNIPROT ID/AC

3MGH_STRCO (3)
6PGL_STRCO (3)
ACKA_STRCO (3)
ACPX_STRCO (3)
ACSA_STRCO (3)
ACT22_STRCO (3)
ACT3_STRCO (3)
ACYP_STRCO (3)
ADD1_STRCO (3)
ADD2_STRCO (3)
ADDL_STRCO (3)
ADE_STRCO (3)
AFSK_STRCO (3)
AFSQ1_STRCO (3)
AFSQ2_STRCO (3)
AFSR_STRCO (3)
AGAR_STRCO (3)
AHPD_STRCO (3)
ALDH_STRCO (3)
ALF_STRCO (3)
ALLB_STRCO (3)
ALLC_STRCO (3)
ALR_STRCO (3)
AMPA_STRCO (3)
AMPP1_STRCO (3)
AMPP2_STRCO (3)
ANSP_STRCO (3)
APEB_STRCO (3)
APT_STRCO (3)
ARC_STRCO (3)

ENSEMBL ID

ENSG00000229353 (4)
ENSG00000170477 (2)

CHEBI ID

CHEBI:17368 (40)
CHEBI:27897 (38)
CHEBI:16704 (37)
CHEBI:16708 (36)
CHEBI:18257 (34)
CHEBI:16750 (34)
CHEBI:17568 (34)
CHEBI:18237 (33)
CHEBI:16811 (33)
CHEBI:28044 (33)
CHEBI:15891 (33)
CHEBI:17596 (33)
CHEBI:16335 (32)
CHEBI:16919 (32)
CHEBI:25017 (31)
CHEBI:15741 (31)
CHEBI:30769 (31)
CHEBI:18186 (30)
CHEBI:17154 (29)
CHEBI:16235 (29)
CHEBI:7916 (29)
CHEBI:29016 (29)
CHEBI:15354 (29)
CHEBI:25094 (28)
CHEBI:17895 (28)
CHEBI:15756 (28)
CHEBI:26271 (27)
CHEBI:28300 (27)
CHEBI:17562 (27)
CHEBI:17821 (27)

Metabolite Name

Hypoxanthine (23)
Adenine (22)
Ornithine (20)
Creatine (20)
Guanosine (19)
Uridine (19)
Uracil (18)
Tryptophan (18)
L-Histidine (17)
Taurine (17)
Glycine (16)
Citric acid (16)
Adenosine (16)
Uric acid (16)
Hippuric acid (16)
L-Tyrosine (16)
Inosine (16)
Thymine (15)
Phenylalanine (15)
L-Tryptophan (15)
Glutamine (15)
Taurine (14)
Choline (14)
Citraconic acid (14)
Arachidonic acid (14)
Linoleic acid (14)
Azelaic acid (14)
Myristic acid (14)
L-Phenylalanine (14)
Leucine (13)

First Public Date

2014 (4)
2025 (2)
2024 (2)
2019 (2)
2023 (1)

Modelling Approach

Ordinary differential equation model (1)

Lab affiliation

Edinburgh Cancer Research, CRUK Scotland Centre, Institute of Genetics and Cancer, University of Edinburgh, Crewe Road South, Edinburgh EH4 2XU, UK (3)
Pacific Northwest National Laboratory (3)
Boston Children's Hospital (2)
Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver V5Z 1L3, Canada. (2)
Institute for Research in Immunology and Cancer (IRIC), University of Montreal (2)
Wilmer Eye Institute, Smith Building, M015, 400 N. Broadway, Baltimore, MD 21287 (2)
lab (2)
1. Cancer Signalling Research Group, School of Biomedical Sciences and Pharmacy, College of Health, Medicine and Wellbeing, University of Newcastle, Callaghan, NSW, AUSTRALIA 2. Precision Medicine Research Program, Hunter Medical Research Institute, New Lambton Heights, NSW, AUSTRALIA 3. Paediatric Program, Mark Hughes Foundation Centre for Brain Cancer Research, College of Health, Medicine, and Wellbeing, Callaghan, NSW, AUSTRALIA (1)
1Department of Biochemistry and Biophysics, School of Medicine, The University of North Carolina at Chapel Hill, Chapel Hill, NC 27599, United States (1)
1Koret School of Veterinary Medicine, The Robert H. Smith Faculty of Agriculture, Food and Environment, The Hebrew University of Jerusalem, Rehovot, Israel (1)
1School of Biomedical Sciences and Pharmacy, College of Health, Medicine and Wellbeing, University of Newcastle, NSW, 2308, Australia 2 Precision Medicine Research Program, Hunter Medical Research Institute, New Lambton Heights, NSW, 2305, Australia (1)
Agriculture and Agri-Food Canada, Canada (1)
Agriculture and Agri-Food Canada, Ottawa Research and Development Centre. (1)
Cambridge Institute for Medical Research, Hills Road, Cambridge, CB2 0XY (1)
Cambridge Institute for Medical Research, University of Cambridge, Hills Road, Cambridge, CB2 0XY, UK (1)
Center for Cancer Research, Massachusetts General Hospital, Boston MA, USA;Department of Chemistry and Chemical Biology, Harvard University, Cambridge MA, USA. (1)
Centre for Bioinnovation, University of the Sunshine Coast (1)
Centre for Discovery Brain Sciences, University of Edinburgh, UK; Simons Initiative for the Developing Brain, University of Edinburgh, UK (1)
Centre for Tumor Biology, Barts Cancer Institute – a CR-UK Centre of Excellence, Queen Mary University of London, John Vane Science Centre, Charterhouse Square, London, EC1M 6BQ, United Kingdom (1)
Chair of Proteomics and Bioanalytics, Technical University of Munich, Bavaria, Germany (1)
Chan Zuckerberg Biohub (1)
Clinical and Diagnostic Immunology, Department Microbiology, Immunology and Transplantation, KU Leuven, Leuven, Belgium Laboratory Medicine, University Hospitals Leuven, Leuven, Belgium (1)
David Geffen School of Medicine, University of California, Los Angeles, CA 90095 Department of Molecular and Medical Pharmacology, Jonsson Comprehensive Cancer Center, Institute for Molecular Medicine, California NanoSystems Institute (1)
Depart of Biology University of Rochester (1)
Department of Anatomy and Neurobiology Virginia Commonwealth University Richmond, VA 23298-0709 USA (1)
Department of Anatomy and Neurobiology, School of Medicine, Virginia Commonwealth University, Richmond, VA USA (1)
Department of Animal Sciences, Robert H. Smith Faculty of Agriculture, Food and Environment, the Hebrew University, Rehovot 76100, Israel Center of Excellence in Agriculture and Environmental Health, the Hebrew University, Rehovot 76100, Israel (1)
Department of Biochemistry University of Cambridge (1)
Department of Biochemistry and Chemistry, LIMS, La Trobe University, Kingsbury Drive, Bundoora, Vic 3086, Australia (1)
Department of Biochemistry and Molecular Biology and Bio21 Molecular Science and Biotechnology Institute, The University of Melbourne, Parkville, VIC 3010, Australia (1)

IsPrivate

False (1)

Modification

Not available (1)

Study type

Transcription profiling by array (159)
RNA-seq of coding RNA (42)
ChIP-seq (37)
Methylation profiling by high throughput sequencing (16)
Unknown experiment type (14)
Comparative genomic hybridization by array (13)
Transcription profiling by tiling array (10)
RNA-seq of non coding RNA (9)
Genotyping by array (5)
Other (5)
DNA-seq (5)
Transcription profiling by RT-PCR (4)
RNA-seq of coding RNA from single cells (4)
ChIP-chip by tiling array (3)
High-throughput sequencing (3)
ChIP-chip by array (3)
ATAC-seq (3)
Methylation profiling by array (3)
Transcription profiling by SAGE (2)
Baseline (2)
MeDIP-seq (2)
Cell line - High-throughput sequencing (2)
MicroRNA profiling by array (2)
RNA-seq of total RNA (2)
Cell line - Single-cell sequencing (1)
Two-color microarray (1)
Bisulfite-seq (1)

Release Date

2022 (1080)
2021 (1027)
2023 (1001)
2025 (949)
2024 (934)
2020 (823)
2019 (730)
2018 (646)
2017 (549)
2015 (528)
2016 (513)
2014 (459)
2012 (328)
2013 (318)
2011 (300)
2010 (202)
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2026 (137)
2008 (116)
2007 (76)
2006 (51)
2005 (35)
2004 (19)
2002 (12)
2000 (8)
2003 (6)
1999 (5)
2001 (2)

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Y chromosome alignment

Variations on the Y chromosome from 44 samples

EGAD00010001573 | EGA

EGAS00001000315-sc-20150521 - samples

The mtDNA and Y chromosome of up to 15 Australian Aborigines, concentrating on individuals with indigenous lineages, will be sequenced using the standard whole-genome sequencing followed by filtering out of autosomal and X sequences, so that only mtDNA and the Y chromosome will be analysed and rele...

EGAD00001001373 | EGA

Human Evolution 3

EGAS00001000315 | EGA

Differentially expressed proteins between WT Y. pestis and ΔhmwC

ORGANISM(S): Yersinia Pestis Co92

PXD042928 |

A comparison of Y-chromosomal lineage dating using either resequencing or Y-SNP plus Y-STR genotyping.

Not available

S-EPMC3820021 | biostudies-literature

Structural variation on the human Y chromosome from population-scale resequencing.

Not available

S-EPMC4500966 | biostudies-literature

KIM5 intracellular expression profiling

Microarrays were used to determine the transcriptional profile of Y. pestis that is growing inside macrophages. J774A.1 macrophage-like cells were infected with Y. pestis KIM5 and incubated in the presence of gentamicin in tissue culture media. RNA was isolated from intracellular bacteria at vari...

ORGANISM(S): Yersinia pestis

2010-07-07 | E-GEOD-22168 | biostudies-arrayexpress

Bacillus subtilis Rnase Y activity in vivo analysed by tiling microarrays

RNase Y is an essential endoribonuclease affecting global mRNA stability in Bacillus subtilis. We used high-resolution tiling arrays to analyze the effect of RNase Y depletion on RNA abundance covering the entire genome. The data confirm that this endoribonuclease plays a key role in initiating the ...

ORGANISM(S): Bacillus subtilis subsp. subtilis str. 168

2013-01-15 | E-GEOD-38897 | biostudies-arrayexpress

Variation of 52 new Y-STR loci in the Y Chromosome Consortium worldwide panel of 76 diverse individuals.

Not available

S-EPMC1794629 | biostudies-literature

A calibrated human Y-chromosomal phylogeny based on resequencing.

Not available

S-EPMC3561879 | biostudies-literature

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11586 Results

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