Liu Simon S - OmicsDI

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Unknown (538)
Genomics (38)
Transcriptomics (14)
Proteomics (9)
Metabolomics (6)

Organisms

Homo sapiens (49)
Mus musculus (6)
Marmota monax (1)
Saccharomyces cerevisiae (1)

Organisms

Mus musculus (1)

Repository

EGA (30)
biostudies-arrayexpress (20)
MetaboLights (6)
pride (5)
MassIVE (3)
geo (1)
PanoramaPublic (1)
ENA (1)

Tissue

Cell culture (2)
Blood cell (1)
Dendritic cell (1)
Embryonic stem cell (1)
Heart (1)
Kidney cancer cell (1)
Primary cell (1)

Technology Type

Mass spectrometry (6)
Mass Spectrometry (5)
Illumina HiSeq 2000, ILLUMINA (2)
Affinity purification coupled with mass spectrometry proteomics (2)
Data-dependent acquisition (2)
CAPILLARY, AB 3730xL Genetic Analyzer (1)
Illumina CytoSNP, Illumina HumanOmni2.5, ILLUMINA, Illumina 450k, Illumina HiSeq 2000 (1)
Illumina HiSeq 2500 (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
Top-down proteomics (1)

Instrument Platform

Q Exactive (3)
Direct infusion MS - negative (2)
Direct infusion MS - positive (2)
Liquid Chromatography MS - negative - hilic (2)
Liquid Chromatography MS - negative - reverse phase (2)
Liquid Chromatography MS - positive - reverse phase (2)
Illumina HiSeq 2500 (1)
Illumina HiSeq 4000 (1)
Orbitrap Eclipse (1)
Orbitrap Fusion Lumos (1)
Direct infusion MS - (1)
HILIC_Neg_SYNAPT-G2_Waters (1)
HILIC_Pos_SYNAPT-G2_Waters (1)
Liquid Chromatography MS - positive - hilic (1)
RP_Neg_SYNAPT-G2_Waters (1)
RP_Pos_SYNAPT-G2_Waters (1)

Publication Date

2010 (7)
2011 (5)
2022 (4)
2026 (3)
2020 (2)
2015 (2)
2013 (2)
2009 (2)
2024 (2)
2019 (2)
2006 (1)
2023 (1)
2017 (1)
2021 (1)

CHEBI ID

CHEBI:137228 (3)
CHEBI:17864 (3)
CHEBI:2696 (3)
CHEBI:28842 (3)
CHEBI:29023 (3)
CHEBI:35420 (3)
CHEBI:80774 (3)
CHEBI:81244 (3)
CHEBI:101278 (2)
CHEBI:131608 (2)
CHEBI:131743 (2)
CHEBI:133094 (2)
CHEBI:133144 (2)
CHEBI:133460 (2)
CHEBI:133530 (2)
CHEBI:138860 (2)
CHEBI:143243 (2)
CHEBI:145755 (2)
CHEBI:145961 (2)
CHEBI:145970 (2)
CHEBI:16113 (2)
CHEBI:16196 (2)
CHEBI:16244 (2)
CHEBI:16359 (2)
CHEBI:16390 (2)
CHEBI:166737 (2)
CHEBI:16704 (2)
CHEBI:16749 (2)
CHEBI:16750 (2)
CHEBI:16755 (2)

Metabolite Name

25-Hydroxyvitamin D3-26,23-lactol (2)
Acetyl-N-formyl-5-methoxykynurenamine (2)
Alpha-Tocopherol succinate (2)
(-)-Epigallocatechin 3-gallate 7-glucoside 4-glucuronide" (1)
(1(10)E,4a,5E)-1(10),5-Germacradiene-12-acetoxy-4,11-diol (1)
(10beta-aH,11xi)-11-Hydroxy-13-nor-6-eremophilen-8-one (1)
(1R,16Z,24E,26E,28Z)-1,18-dihydroxy-12-[1-(4-hydroxy-3-methoxycyclohexyl)propan-2-yl]-19,30-dimethoxy-15,17,21,23,29-pentamethyl-35-methylidene-11,36-diox4-azatricyclo[30.3.1.0,]hexatriacont16,24,26,28-tetraene-2,3,10,14,20-pentone (1)
(24E)-3alpha-a,15alpha-Diacetoxy-23-oxo-7,9(11),24-lanostatrien-26-oic acid (1)
(25R)-3beta,4beta-dihydroxycholest-5-en-26-oate(1-) (1)
(2E)-Pentadecenoyl-CoA (1)
(2E,8Z)-Decadiene-4,6-diyn-1-yl 3-methylbutanoate (1)
(2RS,5RS)-(E)-2-(2-Phenylethenyl)-1,3-dioxan-5-ol (1)
(2S,6R,10R)-Trimethyl-hendecanoyl-CoA (1)
(3a,5b,7a)-23-Carboxy-7-hydroxy-24-norcholan-3-yl-b-D-Glucopyranosiduronic acid (1)
(3b,16a,20R)-25-Acetoxy-3,16,20,22-tetrahydroxy-5-cucurbiten-11-one 3-glucoside (1)
(3b,24R,25x)-26-Benzoyloxystigmast-5-ene-3-ol (1)
(3b,9R)-5-Megastigmene-3,9-diol 9-[apiosyl-(1->6)-glucoside] (1)
(5-ethenyl-2-hydroxyphenyl)oxidanesulfonic acid (1)
(6E,8E,10R,12Z)-10-Hydroxy-3-oxooctadecatrienoic acid (1)
(R)-3-hydroxybutyrylcarnitine (1)
(S)-Annocherine A (1)
(S)-Edulinine (1)
(S)-Nerolidol 3-O-[L-Rhamnopyranosyl-(1->4)-L-rhamnopyranosyl-(1->2)-[L-rhamnopyranosyl-(1->6)]-b-D-glucopyranoside] (1)
(S)-Succinyldihydrolipoamide (1)
(Z)-22-Hentriacontene-2,4-dione (1)
(Z)-9-Cycloheptadecen-1-one (1)
(all-E)-6'-Apo-y-caroten-6'-al (1)
({6-[5,7-dihydroxy-4-oxo-8-(3,4,5-trihydroxyoxan-2-yl)-2-(2,4,5-trihydroxyphenyl)-4H-chromen-6-yl]-3,4,5-trihydroxyoxan-2-yl}methoxy)sulfonic acid (1)
1,1'-(Tetrahydro-6hydroxy-2,3a,5-trimethylfuro[2,3-d]-1,3-dioxole-2,5-diyl)bis-ethanone (1)
1,2-Dihydro-1,1,6-trimethylnaphthalene (1)

First Public Date

2014 (1)

Study type

Transcription profiling by array (10)
ChIP-seq (7)
RNA-seq of coding RNA (2)
Genotyping by high throughput sequencing (1)

Release Date

2021 (62)
2018 (61)
2020 (58)
2024 (53)
2022 (51)
2023 (45)
2025 (43)
2019 (34)
2015 (21)
2014 (21)
2017 (19)
2013 (17)
2016 (16)
2026 (13)
2012 (13)
2011 (12)
2010 (11)
2009 (5)
2006 (1)
2008 (1)
2007 (1)

Lab affiliation

1.Precision Vaccines Program, Division of Infectious Diseases, Boston Children’s Hospital, Boston, MA, USA. 2. Department of Pediatrics, Harvard Medical School, Boston, MA, USA. (1)
College of Medicine and Public Health, FHMRI, Flinders University, Australia (1)
Department of Pathology UT Southwestern Medical Center (1)
Joseph C. Wu, MD, PhD Director, Stanford Cardiovascular Institute Simon H. Stertzer, MD, Professor of Cardiovascular Medicine & Radiology Stanford University School of Medicine Lorry I. Lokey Stem Cell Research Building 265 Campus Drive, Rm G1120B Stanford, CA 94305-5454 Phone: (650) 736-2246 (1)
UT Southwestern Medical Center (1)

Tags

xref:PubMed:19439736 (1)

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Hyperhomocysteinemia-related serum metabolome alterations not normalized by short-term folic acid treatment

Introduction

Hyperhomocysteinemia (HHCys) is an independent risk factor for various diseases such as cardiovascular diseases, Alzheimer's, and cancers. Folate deficiency is one of the significant reasons for HHCys. However, it is not known whether folate deficiency with HHCys is associated w...

2022-02-07 | MTBLS2150 | MetaboLights

Gene expression analysis in control and HIF-2 alpha deficient murine lung endothelial cells under hypoxia

Journal : Blood. 2009 Jul 9;114(2):469-77. Epub 2009 May 13. Title : Endothelial deletion of hypoxia-inducible factor-2alpha (HIF-2alpha) alters vascular function and tumor angiogenesis. Authors : Skuli N, Liu L, Runge A, Wang T, Yuan L, Patel S, Iruela-Arispe L, Simon MC, Keith B. Abstract : Hyp...

ORGANISM(S): Mus musculus

2009-07-15 | E-GEOD-16067 | biostudies-arrayexpress

Metabolomic and Metataxonomic Fingerprinting of Human Milk Suggests Compositional Stability over a Natural Term of Breastfeeding to 24 Months

Sparse data exist regarding the normal range of composition of maternal milk beyond the first postnatal weeks. This single timepoint, observational study in collaboration with the 'Parenting Science Gang' citizen science group evaluated the metabolite and bacterial composition of human milk from 62 ...

2022-02-11 | MTBLS1370 | MetaboLights

Gene expression analysis in control and HIF-2 alpha deficient murine lung endothelial cells under hypoxia

ORGANISM(S): Mus musculus

2009-07-15 | GSE16067 | GEO

Laser-assisted rapid evaporative ionisation mass spectrometry (LA-REIMS) as a metabolomics platform in cervical cancer screening

BACKGROUND: The introduction of high-risk human papillomavirus (hrHPV) testing as part of primary cervical screening is anticipated to improve sensitivity, but also the number of women who will screen positive. Reflex cytology is the preferred triage test in most settings but ha...

2022-02-15 | MTBLS1371 | MetaboLights

PBMC IFNg Dose Reponse

PBMC response to three concentrations of IFNg (0.006, 0.6 and 60 pM) from 0-12h. Abstract: Background Interferons are key modulators of the immune system, and are central to the control of many diseases. The response of immune cells to stimuli in complex populations is the product of direct and ind...

ORGANISM(S): Homo sapiens

2010-06-23 | E-GEOD-16252 | biostudies-arrayexpress

PBMC Cell Subset Stimulation

PBMC cell subsets were treated with 0.6 pM IFNg for 0-24h and compared to mock-treated time series. Abstract: Background Interferons are key modulators of the immune system, and are central to the control of many diseases. The response of immune cells to stimuli in complex populations is the produc...

ORGANISM(S): Homo sapiens

2010-06-23 | E-GEOD-16253 | biostudies-arrayexpress

PBMC Cytokine Comparison

Treatment of PBMC with 0.6 pM cytokine from 0-24h Abstract: Background Interferons are key modulators of the immune system, and are central to the control of many diseases. The response of immune cells to stimuli in complex populations is the product of direct and indirect effects, homotypic and he...

ORGANISM(S): Homo sapiens

2010-06-23 | E-GEOD-16251 | biostudies-arrayexpress

Distinct transcriptomic landscapes of cutaneous basal cell carcinomas and squamous cell carcinomas.

Not available

S-EPMC8099692 | biostudies-literature

Tumor-derived IL-6 and trans-signaling among tumor, fat, and muscle mediate pancreatic cancer cachexia.

Not available

S-EPMC8185651 | biostudies-literature

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Introduction

BACKGROUND: The introduction of high-risk human papillomavirus (hrHPV) testing as part of primary cervical screening is anticipated to improve sensitivity, but also the number of women who will screen positive. Reflex cytology is the preferred triage test in most settings but ha...

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