Palmer L L - OmicsDI

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Unknown (2532)
Transcriptomics (73)
Genomics (37)
Proteomics (27)
Metabolomics (18)
Models (3)
Genomic (1)

Organisms

Homo sapiens (85)
Mus musculus (25)
Yersinia pestis (4)
Pseudomonas aeruginosa (4)
Arabidopsis thaliana (3)
Danio rerio (2)
Rattus norvegicus (2)
Acinetobacter baumannii (2)
Panicum virgatum (2)
Listeria monocytogenes 10403S (1)
Streptococcus gordonii (1)
Francisella tularensis subsp. holarctica LVS (1)
Enterococcus faecalis V583 (1)
Saccharomyces cerevisiae (1)
Dengue virus (1)
Drosophila melanogaster (1)
Human respiratory syncytial virus A (1)
Ovis aries (1)
Sus scrofa domesticus (1)

Repository

biostudies-arrayexpress (77)
EGA (34)
pride (23)
MetaboLights (18)
BioModels (3)
MassIVE (3)
dbGaP (1)
PanoramaPublic (1)
ENA (1)

Tissue

Cell culture (4)
Brain (3)
Blood (2)
Blood plasma (2)
Epithelial cell (2)
Heart (2)
Leaf (2)
Lung (2)
Permanent cell line cell (2)
Bone marrow (1)
Early embryonic cell (1)
Fascia (1)
Kidney (1)
Multiple myeloma cell line (1)
Optic nerve (1)
Plasma cell (1)
Respiratory epithelial cell (1)
Stem cell (1)

Disease

Diabetes mellitus (1)
Integrated HPV16 only (1)
Squamous cell carcinoma has accession C0007137 in DiseaseStateDatabase NCI_Thesaurus (1)
T-cell acute lymphoblastic leukemia (1)
Head and neck squamous cell carcinoma (1)
Congestive heart failure (1)
Lung cancer (1)
Multiple myeloma (1)
Myelodysplastic syndrome (1)
Non-small cell lung carcinoma (1)
Plantar fascial fibromatosis (1)
Septic shock (1)

Technology Type

Mass Spectrometry (23)
Mass spectrometry (16)
Shotgun proteomics (13)
Bottom-up proteomics (6)
Mass spectrometry assay (2)
Affinity purification coupled with mass spectrometry proteomics (2)
Data-dependent acquisition (2)
SWATH MS (2)
Affymetrix 6.0 (1)
Affymetrix 6.0, Illumina_670k - Illuminus, Illumina 1.2M (1)
Illumina 1.2M, Affymetrix 6.0 (1)
Illumina 1.2M, Affymetrix 6.0, Affymetrix 6.0 - CHIAMO (1)
Illumina 1.2M, Illumina 610K Quad, Affymetrix 6.0 (1)
Illumina HumanExome-12v1_A-GenCall, zCall, GenoSNP, - Illuminus (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
Data-independent acquisition (1)
Gel-based experiment (1)
Olink affinity proteomics (1)

Instrument Platform

Illumina NovaSeq 6000 (6)
Liquid Chromatography MS - positive - reverse phase (5)
Liquid Chromatography MS - negative - reverse phase (4)
MS Imaging - (3)
GenePix 4000B [Axon Instruments] (2)
Illumina HiSeq 2500 (2)
Q Exactive (2)
Gas Chromatography MS - positive (2)
MoFlo Legacy cell sorter (Beckman Coulter) (1)
PC (1)
FS450 (1)
GCS3000 (1)
418 [Affymetrix] (1)
Illumina HiSeq 4000 (1)
Orbitrap Eclipse (1)
Orbitrap Exploris 480 (1)
Atmospheric Pressure Matrix Assisted Laser Desorption/Ionization orbitrap MS - Positive (1)
Autoflex speed smartbeam (1)
Capillary electrophoresis MS - negative (1)
Capillary electrophoresis MS - positive (1)
Exactive (1)
LTQ Orbitrap XL ETD (1)
Liquid Chromatography MS - (1)
MS Imaging - Atmospheric Pressure Matrix Assisted Laser Desorption/Ionization orbitrap MS - Positive (1)
MS Imaging - positive - direct infusion (1)
QExactive Plus (1)
Simulator (1)
Solarix (1)

Publication Date

2011 (15)
2010 (12)
2021 (8)
2016 (8)
2023 (7)
2022 (7)
2025 (7)
2019 (6)
2024 (5)
2020 (5)
2013 (5)
2012 (5)
2008 (5)
2006 (5)
2005 (4)
2015 (4)
2014 (4)
2018 (3)
2017 (3)
2009 (2)
2007 (2)
2026 (2)

UNIPROT ID/AC

O15530 (1)
P06213 (1)
P13678 (1)
P14672 (1)
P31749 (1)
P35568 (1)
P42345 (1)

CHEBI ID

CHEBI:64433 (4)
CHEBI:134271 (3)
CHEBI:134424 (3)
CHEBI:15756 (3)
CHEBI:16610 (3)
CHEBI:64424 (3)
CHEBI:64563 (3)
CHEBI:72998 (3)
CHEBI:131145 (2)
CHEBI:132685 (2)
CHEBI:134028 (2)
CHEBI:134073 (2)
CHEBI:134074 (2)
CHEBI:134239 (2)
CHEBI:134241 (2)
CHEBI:134243 (2)
CHEBI:134270 (2)
CHEBI:134423 (2)
CHEBI:134426 (2)
CHEBI:134428 (2)
CHEBI:134448 (2)
CHEBI:134451 (2)
CHEBI:134454 (2)
CHEBI:134490 (2)
CHEBI:136225 (2)
CHEBI:136243 (2)
CHEBI:141588 (2)
CHEBI:143713 (2)
CHEBI:15428 (2)
CHEBI:36080 (1)

Metabolite Name

35-aminobacteriohopane-32,33,34-triol (2)
Clupanodonyl carnitine (2)
L-Leucine (2)
L-Phenylalanine (2)
Spermidine (2)
(+/-)-threo-Methylnaphthidate (1)
(13Z)-octadecenoic acid (1)
(1H-Indol-3-yl)(2,2,3,3-tetramethylcyclopropyl)methanone (1)
(1R,3R,4S,5R)-3,4-bis({[(2E)-3-(3,4-dihydroxyphenyl)prop-2-enoyl]oxy})-1,5-dihydroxycyclohexane-1-carboxylic acid (1)
(20S,24S)-Thornasterol B (1)
(2R)-2-[(2R,5S)-5-[(2S)-2-hydroxybutyl]oxolan-2-yl]propanoic acid (1)
(3R)-beta-Leucine (1)
(3S,9aS)-3-benzyl-octahydro-1H-pyrido[1,2-a]pyrazin-1-one (1)
(6R)-5,10-methylenetetrahydrofolic acid (1)
(6Z)-Octadecenoicacid (1)
(7Z,10Z,13Z,16Z,19Z)-3-oxodocosapentaenoyl-CoA (1)
(R)-1,2-distearoylphosphatidylethanolamine (1)
1(2H)-Isoquinolinone (1)
1,2-Di-O-myristoyl-3-O-(6-sulfoquinovopyranosyl)glycerol (1)
1,2-Diaminobenzene (1)
1,2-distearoyl-sn-glycero-3-phosphoserine (1)
1,25-Dihydroxycholesterol (1)
1,3,4,10-Tetrahydro-9(2H)-acridinone (1)
1,3-Dihydro-1,3,3-trimethyl-2H-indol-2-ylidene acetaldehyde (1)
1,4-Lactone (1)
1,5-Naphthalenediamine (1)
1-(1,3,3-Trimethyl-2,3-dihydro-1H-indol-2-yliden)acetone (1)
1-(2,3-Dihydro-1H-pyrrolizin-5-yl)-2-propen-1-one (1)
1-(2,4-Dihydroxyquinolin-3-yl)ethan-1-one (1)
1-(4-Methylphenyl)pyrrolidine-2,5-dione (1)

IsPrivate

False (3)

First Public Date

2024 (1)

Modelling Approach

Ordinary differential equation model (3)

Study type

Transcription profiling by array (55)
RNA-seq of coding RNA (7)
Unknown experiment type (4)
Cell line - High-throughput sequencing (2)
Other (2)
ChIP-seq (2)
ChIP-chip by SNP array (1)
Methylation profiling by array (1)
RNA-seq of total RNA (1)

Release Date

2021 (295)
2022 (266)
2023 (247)
2025 (219)
2024 (212)
2019 (177)
2020 (168)
2018 (154)
2016 (130)
2017 (111)
2015 (102)
2014 (100)
2011 (93)
2013 (86)
2012 (66)
2010 (56)
2026 (33)
2008 (28)
2009 (26)
2007 (12)
2006 (10)
2005 (8)
2003 (2)
2002 (2)
1999 (2)
1998 (2)
2004 (1)
2000 (1)

Lab affiliation

Center for Proteomics & Metabolomics, St. Jude Children's Research Hospital, Memphis, TN 38105, USA (2)
Department of Molecular Microbiology, Washington University School of Medicine, 4940 Parkview Place, Campus Box 8230, St. Louis, MO 63110, USA (2)
University of Nebraska - Lincoln (2)
Associate Professor, Department of Biochemistry & Molecular Biology, UTMB Mass Spectrometry Director, University of Texas Medical Branch – Galveston, Texas, USA (1)
Bascom Palmer Eye Institute, Department of Ophthalmology, Miller School of Medicine at University of Miami, Miami, FL 33136, USA +1 (305) 4824103 (1)
Department of Biochemistry & Pharmacology, University of Melbourne, Australia (1)
Department of Medical Biochemistry and Cell Biology, Instititute of Biomedicine at the Sahlgrenska Academy, University of Gothenburg, SE-40530 Gothenburg, Sweden (1)
Department of Medical Biochemistry and Cell Biology, Institute of Biomedicine, Sahlgrenska Academy, Gothenburg University, Sweden. (1)
Department of Medical Oncology, Dana-Farber Cancer Institute (1)
Department of Musculoskeletal and Ageing Science Institute of Life Course and Medical Sciences University of Liverpool, UK (1)
Department of Pharmaceutical Chemistry, UCSF (1)
Faculty of Medicine and Health Technology, Tampere University, Tampere, Finland, and Department of Cardiothoracic Surgery, Jena University Hospital, Jena, Germany (1)
Institute of Cancer Research (1)
Junior Group leader Vascular Research Centre, Medicine Faculty Goethe-Universität, Theodor-Stern-Kai 7 60590 Frankfurt am Main, Germany (1)
Mass Spectrometry Facility, Department of Biochemistry and Molecular Biology, University of Texas Medical Branch at Galveston, USA (1)
MiNA Therapeutics, United Kingdom (1)
Omics Lab, Christchurch Heart Institute Department of Medicine University of Otago, Christchurch New Zealand (1)
Otto Krayer Professor Department of Systems Biology Head of the Harvard Program in Therapeutic Sciences Harvard Medical School 200 Longwood Avenue, WAB440 Boston, MA 02115 (1)
University of Miami Bascom Palmer Eye Institute (1)
Vanderbilt University Department of Chemistry Nashville, TN, USA (1)

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Identification of sigB inhibitors in L. monocytogenes

The extensively studied intracellular pathogen, L. monocytogenes, is an ideal model for identifying small-molecule agents for treating bacterial infections. By selecting specific biological targets in L. monocytogenes, which are common to Gram-positive pathogens, we could extrapolate drug discovery ...

ORGANISM(S): Listeria monocytogenes 10403S

2011-12-06 | E-GEOD-16887 | biostudies-arrayexpress

Effects of dietary arginine supplementation in pregnant mares on maternal metabolism, placental structure and function and foal growth.

Not available

S-EPMC6478728 | biostudies-literature

Transcription profiling of Streptococcus gordonii wildtype and Brf- deletion and insertion mutants

RNA was isolated from early stationary phase S. gordonii V288(OD620 nm ~ 1.8).Bacteria were grown in chemically defined synthetic media (FMC) ( K2HPO4, 300 µg ml-1; KH2PO4 440 µg ml-1; Na2HPO4, 3.15 mg ml-1; NaH2PO4, 2.05 mg ml-1; (NH4)2SO4 0.6 mg ml-1; sodium citrate, 225 µg ml-1; riboflavin, 0....

ORGANISM(S): Streptococcus gordonii

2008-08-01 | E-MEXP-1712 | biostudies-arrayexpress

Functional evidence that Drosha over-expression in cervical squamous cell carcinoma affects cell phenotype and microRNA profiles [mRNA]

Comparison of mRNA expression profiles in W12 Series 1 cervical ectokeratinocytes at passage number 22 versus 19 (during which time the cells gain an invasive phenotype) As these cells demonstrate gain of chromosome 5p during this time, mRNA expression profiling data interrogated for over-expressed ...

ORGANISM(S): Homo sapiens

2011-05-25 | E-GEOD-26176 | biostudies-arrayexpress

Plant responses to bacterial N-acyl L-homoserine lactones are dependent on enzymatic degradation to L-homoserine.

Not available

S-EPMC4136694 | biostudies-literature

Comparing photosynthetic characteristics of Isoetes sinensis Palmer under submerged and terrestrial conditions.

Not available

S-EPMC4669503 | biostudies-literature

Structural insights into the reaction mechanism of S-adenosyl-L-homocysteine hydrolase.

Not available

S-EPMC4647836 | biostudies-literature

Raman Spectroscopy Can Distinguish Glyphosate-Susceptible and -Resistant Palmer Amaranth (Amaranthus palmeri).