Feng Patrick P - OmicsDI

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Unknown (15)
Transcriptomics (4)
Proteomics (4)
Genomics (1)
Multiomics (1)
Metabolomics (1)

Organisms

Homo sapiens (5)
Mus musculus (2)

Repository

biostudies-arrayexpress (5)
MassIVE (2)
jPOST (1)
MetaboLights (1)
pride (1)

Tissue

Cell culture (1)
Macrophage (1)

Technology Type

Mass spectrometry assay (1)
Mass Spectrometry (1)
Top-down proteomics (1)

Instrument Platform

LTQ (1)
LTQ XL ETD (1)
Q Exactive Plus (1)
Liquid Chromatography MS - negative (1)
Liquid Chromatography MS - positive (1)

Publication Date

2015 (3)
2014 (2)
2013 (1)
2023 (1)
2019 (1)
2024 (1)
2025 (1)

Metabolite Name

(+)-Allopumiliotoxin 267A (1)
(+)-Eudesmin (1)
(-)-Lupinine (1)
(.+/-.)-Laudanosine (1)
(1R,2S)-1-(7,8-Dihydro-6-pteridinyl)-1,2-propanediol (1)
(1S,5R)-5-Isopropenyl-2-methyl-2-cyclohexen-1-yl beta-D-glucopyranoside (1)
(2E)-hexadecenoylcarnitine (1)
(2E,2'E)-3,3'-[2,4-Bis(1,3-benzodioxol-5-yl)-1,3-cyclobutanediyl]bis[1-(1-piperidinyl)-2-propen-1-one] (1)
(2R,5R,6R)-3-[(1E,3E)-hepta-1,3-dien-1-yl]-5,6-dihydroxy-2-(hydroxymethyl)cyclohexan-1-one (1)
(2S)-3-Hydroxy-2-({[(3S,4S,5R)-2,3,4-trihydroxy-5-(hydroxymethyl)tetrahydro-2-furanyl]methyl}amino)butanoic acid (non-preferred name) (1)
(2S)-3-Methyl-2-({[(3S,4S,5R)-2,3,4-trihydroxy-5-(hydroxymethyl)tetrahydro-2-furanyl]methyl}amino)butanoic acid (non-preferred name) (1)
(2S)-3-Phenyl-2-({[(3S,4S,5R)-2,3,4-trihydroxy-5-(hydroxymethyl)tetrahydro-2-furanyl]methyl}amino)propanoic acid (non-preferred name) (1)
(2S)-4-Methyl-2-({[(3S,4S,5R)-2,3,4-trihydroxy-5-(hydroxymethyl)tetrahydro-2-furanyl]methyl}amino)pentanoic acid (non-preferred name) (1)
(2S)-5-Carbamimidamido-2-(2-oxo-1-azetidinyl)pentanoic acid (1)
(4-Ethoxyphenyl)urea (1)
(4R)-4-{[(4R)-4-Hydroxy-1-methyl-L-prolyl]oxy}-1-methyl-L-proline (1)
(4S,5S,8S,10R)-4,5,8-trihydroxy-10-methyl-3,4,5,8,9,10-hexahydro-2H-oxecin-2-one (1)
(4S,5S,8S,10R)-4,5,8-trihydroxy-10-methyl-3,4,5,8,9,10-hexahydro-2H-oxecin-2-one*;*Hopantenic acid (1)
(5Z)-3-aminonon-5-enoic acid (1)
(5alpha,7alpha)-17-(Cyclopropylmethyl)-7-(2-hydroxy-3,3-dimethyl-2-butanyl)-6-methoxy-18,19-dihydro-4,5-epoxy-6,14-ethenomorphinan-3-yl beta-D-glucopyranosiduronic acid (1)
(6aR,11aR)-10-(3-Hydroxy-3-methylbutyl)-6a,11a-dihydro-6H-[1]benzofuro[3,2-c]chromene-3,9-diol (1)
(±)15-HETE (1)
.alpha.-Aminoadipic acid (1)
.alpha.-Glucoheptitol (1)
1,3,7-Trimethyluric acid (1)
1,3a,8-Trimethyl-1,2,3,3a,8,8a-hexahydropyrrolo[2,3-b]indol-5-yl methylcarbamate (1)
1,6-Dimethoxypyrene (1)
1-Methyl-2,3,4,9-tetrahydro-1H-beta-carboline-1,3-dicarboxylic acid (1)
1-Methyl-L-histidine*,*3-Methyl-L-histidine (1)
1-Nitrosopiperidine (1)

Study type

ChIP-seq (1)
Transcription profiling by array (1)
Methylation profiling by array (1)
RNA-seq of coding RNA (1)
RNA-seq of non coding RNA (1)

Release Date

2021 (4)
2015 (2)
2014 (2)
2013 (2)
2025 (2)
2024 (2)
2022 (2)
2020 (2)
2023 (1)
2019 (1)

Lab affiliation

Translational Genomics Research Institute (1)

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Divergent influence of microRNA-21 deletion on murine colitis phenotypes [mRNA]

Background: MicroRNAs (miRNAs) acting as negative regulators of gene expression are differentially expressed in intestinal tissues of patients with inflammatory bowel disease (IBD). Assessing the functional role of miRNAs in murine models of colitis facilitates elucidating the role of specific miRN...

ORGANISM(S): Mus musculus

2014-07-23 | E-GEOD-59648 | biostudies-arrayexpress

Metagenomic analysis reveals a rich bacterial content in high-risk prostate tumors from African men.

Not available

S-EPMC6790596 | biostudies-literature

Burkholderia cenocepacia-mediated inhibition of Staphylococcus aureus growth and biofilm formation

Staphylococcus aureus asymptomatically colonizes the nasal cavity and pharynx of up to 60% of the human population and, as an opportunistic pathogen, can breach its normal habitat, resulting in life-threatening infections. S. aureus infections are of additional concern for populations with impair...

2024-11-26 | MTBLS11049 | MetaboLights

Proteomic response of macrophages to human cancer Raji cells

In order to determine changes in phosphorylation events in macrophages upon phagocytosis of cancer cells, mouse macrophages were co-cultured with human Raji cancer cells. Macrophages were collected as 0, 1, 15, 60 and 120 minutes after incubation. Phosphosite abundances were compared between timepoi...

ORGANISM(S): Mus musculus (Mouse)

2025-05-07 | PXD053542 | Pride

Developing and evaluating pediatric phecodes (Peds-Phecodes) for high-throughput phenotyping using electronic health records.

Not available

S-EPMC10797257 | biostudies-literature

Interactions between fungal hyaluronic acid and host CD44 promote internalization by recruiting host autophagy proteins to forming phagosomes.

Not available

S-EPMC7920835 | biostudies-literature

EZH2 inhibitor efficacy in non-Hodgkin lymphoma does not require suppression of H3K27 mono-methylation [RNA-Seq]

Here we report the discovery of highly potent and selective EZH2 small molecule inhibitors, their validation by a cellular thermal shift assay, their application across a large lymphoma cell panel and their efficacy in GCBDLBCL xenograft models. RNA-seq of KARPAS-422 cell line RNA, in duplicate, tre...

ORGANISM(S): Homo sapiens

2015-04-13 | E-GEOD-62056 | biostudies-arrayexpress

EZH2 inhibitor efficacy in non-Hodgkin lymphoma does not require suppression of H3K27 mono-methylation [ChIP-Seq]

Here we report the discovery of highly potent and selective EZH2 small molecule inhibitors, their validation by a cellular thermal shift assay, their application across a large lymphoma cell panel and their efficacy in GCBDLBCL xenograft models. Baseline ChIP-seq measurement of KARPAS-422 cell line ...

ORGANISM(S): Homo sapiens

2015-04-13 | E-GEOD-62057 | biostudies-arrayexpress

Proteome analysis of human lymphotropic tumor viruses

Detection/identification of virola proteins from tumor cells

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2015-02-12 | MSV000079036 | MassIVE

Multicolor miRNA fluorescence in situ hybridization for tumor differential diagnosis

We profiled and quantitated miRNAs in two skin tumors (Basal cell carcinoma and Merkel cell carcinoma) and identified tumor-specific miRNAs. We used these tumor-specific miRNAs to guide development of miRNA fluorescence in situ hybridization. 2 barcoded sequencing runs, including 40 unique samples (...

ORGANISM(S): Homo sapiens

2013-06-28 | E-GEOD-34137 | biostudies-arrayexpress

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OmicsDI is part of the ELIXIR infrastructure

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