Porter D L DL - OmicsDI

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Unknown (93)
Transcriptomics (50)
Proteomics (6)
Genomics (1)
Metabolomics (1)

Organisms

Mus musculus (8)
Homo sapiens (8)
Saccharomyces cerevisiae (7)
Gallus gallus (4)
Rattus norvegicus (4)
Streptococcus pneumoniae (3)
Plasmodium falciparum (3)
Phlebiopsis gigantea (1)
Dictyostelium discoideum AX4 (1)
Thermotoga maritima MSB8 (1)
Caldicellulosiruptor saccharolyticus (1)
Lactococcus lactis (1)
Carcinus maenas (1)
Dehalobacter restrictus (1)
Toxoplasma gondii (1)
Neisseria meningitidis (1)
Zea mays (1)
Campylobacter jejuni (1)
Acinetobacter baumannii (1)
Pseudomonas aeruginosa (1)
Escherichia coli (1)
Corynebacterium glutamicum ATCC 13032 (1)
Candida albicans (1)
cellular organisms (1)

Repository

biostudies-arrayexpress (52)
pride (3)
jPOST (1)
MassIVE (1)
MetaboLights (1)

Tissue

Permanent cell line cell (1)

Technology Type

Gel-based experiment (3)
Mass Spectrometry (3)
Mass spectrometry assay (1)
Affinity purification coupled with mass spectrometry proteomics (1)
Top-down proteomics (1)

Instrument Platform

NextSeq 550 (1)
Illumina NovaSeq 6000 (1)
Illumina HiSeq 4000 (1)
Q Exactive Plus (1)
Liquid Chromatography MS - alternating - reverse-phase (1)

Publication Date

2010 (9)
2008 (9)
2013 (8)
2011 (8)
2021 (3)
2015 (3)
2012 (3)
2009 (3)
2007 (3)
2022 (3)
2014 (2)
2024 (1)
2006 (1)
2023 (1)
2026 (1)

Metabolite Name

(-)-Menthyl (R)-1-[(R)-Alpha-Methylbenzyl]Aziridine-2-Carboxylate (1)
(1-Methyl-2,3-Dihydropyridin-6-Ylidene)Hydrazine (1)
(11R,12S,13S)-Epoxy-hydroxyoctadeca-cis-9-cis-15-dien-1-oic acid (1)
(19E)-4-Ethyl-2,16-Didehydrocur-19-En-4-Ium-17-Al (1)
(1S,2S,6R,7R,9R)-6-methyl-10,12-dioxatricyclo[7.2.1.0<2,7>]dodec-4-en-8-one (1)
(1S,4R,5S,23S,26S)-26-hydroxy-4,5,13,13,15,15,31,31-octamethyl-14,32,33-trioxa-7-azanonacyclo[28.2.1.01,27.04,26.05,23.06,21.08,20.010,18.011,16]tritriaconta-6(21),8(20),9,11,16,18,27-heptaen-29-one (1)
(2-Isobutyrylamino-Acetylamino)-Acetic Acid (1)
(2E)-3-(4-Acetoxy-2,3-dihydroxy-2,5,5,8a-tetramethyldecahydro-1-naphthalenyl)acrylic acid (1)
(2E,4E)-N-[2-(4-hydroxyphenyl)ethyl]dodeca-2,4-dienamide (1)
(2E,6E,12E)-19-(2-Amino-2-oxoethyl)-9,11-dihydroxy-8-methoxy-10,12,14-trimethyl-15-oxohenicosa-2,6,12-trienedioic acid (1)
(2R)-2-((2S,3R)-3-methyl-2-((7S)-5-oxo-7,8,13,13b-tetrahydro-5H-benzo[1,2]indolizino[8,7-b]indole-7-carboxamido)pentanamido)propanoic acid (1)
(2R,3S,4S,5R,6R)-2-[[(2R,3R,4R)-3,4-dihydroxy-4-(hydroxymethyl)oxolan-2-yl]oxymethyl]-6-oct-1-en-3-yloxyoxane-3,4,5-triol (1)
(2S)-1-[(2S)-2-[(5-methoxy-1-methylindole-2-carbonyl)amino]-3-methylbutanoyl]pyrrolidine-2-carboxylic acid (1)
(2S)-2-[[(2S)-3-methyl-2-[[(2S)-3-oxo-2-propan-2-yl-2,4-dihydroquinoxaline-1-carbonyl]amino]butanoyl]amino]-3-phenylpropanoic acid (1)
(2S)-3-(1H-indol-3-yl)-2-[[(2S)-3-methyl-2-[[(2S)-3-oxo-2-propan-2-yl-2,4-dihydroquinoxaline-1-carbonyl]amino]butanoyl]amino]propanoic acid (1)
(2S)-N-(6-methoxy-2,3,4,9-tetrahydro-1H-carbazol-1-yl)-3-methyl-2-(1-oxoisoindolin-2-yl)butanamide (1)
(2S)-N-[(2S)-1-[(2-amino-2-oxoethyl)amino]-4-methyl-1-oxopentan-2-yl]-1-[1-(4-methylphenyl)sulfonylpiperidine-4-carbonyl]pyrrolidine-2-carboxamide (1)
(2S,3S)-3-decyl-2-hydroxy-2-(3-methoxy-3-oxopropyl)butanedioic acid (1)
(2Z)-2-benzothiazol-2-yl-3-(4-hydroxy-3,5-dimethoxyphenyl)prop-2-enenitrile (1)
(2Z)-3-[N-(carboxymethyl)carbamoyl]prop-2-enoic acid (1)
(3,4-dimethoxyphenyl)-N-(1-ethyl-1-methylprop-2-ynyl)carboxamide (1)
(3,4-dimethoxyphenyl)-N-(2-{N-[2-(3,4-dimethoxyphenyl)ethyl]carbamoyl}phenyl)c arboxamide (1)
(3,4-dimethoxyphenyl)-N-(???methyl)carboxamide (1)
(3,4-dimethoxyphenyl)-N-[4-({4-[(3,4-dimethoxyphenyl)carbonylamino]cyclohexyl} methyl)cyclohexyl]carboxamide (1)
(3-{[2-(4-chlorophenyl)quinazolin-4-yl]amino}propyl)diethylamine (1)
(3-{[2-(4-chlorophenyl)quinazolin-4-yl]amino}propyl)dimethylamine (1)
(3E,5Z)-1,3,5-Heptatriene (1)
(3E,7E,11E,15E)-5,9,13,17,18-pentahydroxy-4,6,8,10-tetramethyl-2-[(E)-2-methylbut-2-enyl]nonadeca-3,7,11,15-tetraenedioic acid (1)
(3R,3aR,4S,9aS,9bR)-4-hydroxy-3,6-dimethyl-9-[[(2R,3R,4S,5S,6R)-3,4,5-trihydroxy-6-(hydroxymethyl)oxan-2-yl]oxymethyl]-3,3a,4,5,9a,9b-hexahydroazuleno[4,5-b]furan-2,7-dione (1)
(3beta,5xi,9xi,18xi,22beta)-22,25-Dihydroxyolean-12-en-3-yl 6-deoxy-alpha-L-mannopyranosyl-(1->2)-beta-D-xylopyranosyl-(1->2)-beta-D-glucopyranosiduronic acid (1)

Study type

Transcription profiling by array (38)
Unknown experiment type (4)
RNA-seq of coding RNA (4)
Comparative genomic hybridization by array (2)
Cell line - One-color microarray (1)
ChIP-seq (1)
Proteomic profiling by array (1)
RNA-seq of coding RNA from single cells (1)

Release Date

2013 (13)
2021 (12)
2011 (12)
2022 (12)
2008 (11)
2010 (10)
2023 (8)
2018 (8)
2024 (7)
2015 (7)
2012 (7)
2009 (5)
2020 (5)
2016 (5)
2014 (4)
2007 (4)
2025 (4)
2017 (4)
2019 (3)
2004 (2)
2006 (1)
2026 (1)

Lab affiliation

CARL J. HERZOG PROFESSOR OF DERMATOLOGY STANFORD UNIVERSITY SCHOOL OF MEDICINE, STANFORD, CA 94305 (1)
Dept. of Dermatology Stanford University School of Medicine (1)
Professor of Dermatology Stanford University School of Medicine 269 Campus Drive, Stanford, CA 94305 USA (1)

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RNA-seq for Thermotoga maritima MSB8 glucose evolved cultures

RNA-seq was performed on T. maritima wild type, three glucose evolved cultures, and three glycerol adapted cultures. Wild type and glucose evolved strains were grown on glucose minimal media and glycerol evolved cultures were grown on glycerol minimal media. All samples were harvested in exponential...

ORGANISM(S): Thermotoga maritima MSB8

2015-06-09 | E-GEOD-63141 | biostudies-arrayexpress

pBL1 impairs cellobiose metabolism in Lactococcus lactis

pBL1 is a Lactococcus lactis theta-replicating 10.9-kbp plasmid that encodes the synthetic machinery of the bacteriocin Lcn972. In this work, the transcriptomes of exponentially growing L. lactis with and without pBL1 were compared. A discrete response was observed with a total of ten genes showing ...

ORGANISM(S): Lactococcus lactis

2011-09-14 | E-GEOD-30625 | biostudies-arrayexpress

Transcriptome analysis of Pseudomonas aeruginosa PAO1 Response to Hydroxyproline

Hydroxy-L-proline (L-Hyp) mainly exists in animal collagens through post-translational modification on peptidyl proline. Utilization of L-Hyp as carbon and nitrogen sources in bacteria including P. aeruginosa requires conversion of L-Hyp to D-Hyp followed by the D-Hyp dehydrogenase pathway. However,...

ORGANISM(S): Pseudomonas aeruginosa

2015-09-22 | E-GEOD-73244 | biostudies-arrayexpress

Transcription profiling of S. cerevisiae during prolonged maltose limited cultivation

Prolonged cultivation (>25 generations) of Saccharomyces cerevisiae in aerobic, maltose-limited chemostat cultures led to profound physiological changes. Maltose hypersensitivity was observed when cells from prolonged cultivations were suddenly exposed to excess maltose. This substrate hypersensitiv...

ORGANISM(S): Saccharomyces cerevisiae

2008-06-16 | E-GEOD-8897 | biostudies-arrayexpress

Structural polymorphism in the promoter of pfmrp2 confers tolerance to mefloquine and chloroquine in Plasmodium falciparum [CGH]

Drug resistance in Plasmodium falciparum remains a challenge for the malaria eradication programs around the world. With the emergence of artemisinin resistance, the efficacy of the partner drugs in the artemisinin combination therapies (ACT) that include quinoline based drugs is becoming critical. ...

ORGANISM(S): Plasmodium falciparum

2013-02-07 | E-GEOD-44128 | biostudies-arrayexpress

Analysis of Genes in the Hypothalamus Controlling Feed Intake and Energy Metabolism in Neonatal Chicks

Delayed access to feed following hatching has been associated with reduction in growth performance in chicks. However, the gene networks within the hypothalamus that regulate feed intake and metabolism, and the effects of fasting on those pathways are not well understood. The present experiment eval...

ORGANISM(S): Gallus gallus

2008-10-18 | E-GEOD-13257 | biostudies-arrayexpress

Engineering topology and kinetics of sucrose metabolism in Saccharomyces cerevisiae for improved ethanol yield

Sucrose is a major carbon source for industrial bioethanol production by Saccharomyces cerevisiae. In yeasts, two modes of sucrose metabolism occur: (i) extracellular hydrolysis by invertase, followed by uptake and metabolism of glucose and fructose, and (ii) uptake via sucrose-H+ symport followed b...

ORGANISM(S): Saccharomyces cerevisiae

2011-09-05 | E-GEOD-30535 | biostudies-arrayexpress

Glucocorticoid-Dependent Hippocampal Transcriptome in Male Rats: Pathway-Specific Alterations with Aging

Although glucocorticoids (GCs) are known to exert numerous effects in the hippocampus, their chronic regulatory functions remain poorly understood. Moreover, evidence is inconsistent regarding the longstanding hypothesis that chronic GC exposure promotes brain aging/Alzheimer's disease. Here, we adr...

ORGANISM(S): Rattus norvegicus

2013-07-22 | E-GEOD-37618 | biostudies-arrayexpress

Myeloablative Versus Reduced-Intensity Hematopoietic Cell Transplantation for Acute Myeloid Leukemia and Myelodysplastic Syndromes.

Not available

S-EPMC5455603 | biostudies-literature

Hydrogenomics of the extremely thermophilic bacterium Caldicellulosiruptor saccharolyticus

Caldicellulosiruptor saccharolyticus is an extremely thermophilic, Gram-positive anaerobe, which ferments cellulose-, hemicellulose- and pectin-containing biomass to acetate, CO2 and hydrogen. Its broad substrate range, high hydrogen-producing capacity, and ability to co-utilize glucose and xylose, ...

ORGANISM(S): Caldicellulosiruptor saccharolyticus

2008-04-15 | E-GEOD-11153 | biostudies-arrayexpress

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