Johnson R R - OmicsDI

Show results for

Unknown (11918)
Transcriptomics (518)
Proteomics (233)
Genomics (105)
Metabolomics (95)
Models (5)
Genomic (3)
Multiomics (1)

Organisms

Homo sapiens (296)
Mus musculus (123)
Arabidopsis thaliana (21)
Saccharomyces cerevisiae (17)
Rattus norvegicus (11)
Candida albicans (9)
Drosophila melanogaster (9)
Caulobacter vibrioides (6)
Danio rerio (5)
Ovis aries (4)
Gallus gallus (4)
Macaca mulatta (3)
Caenorhabditis elegans (3)
Kluyveromyces lactis (2)
Taeniopygia guttata (2)
Chlamydomonas reinhardtii (2)
mouse gut metagenome (2)
Apis mellifera (2)
Oryza sativa (2)
Mycobacterium tuberculosis (2)
Oryza sativa Japonica Group (2)
Sus scrofa (2)
Rhabdomys pumilio (1)
Peromyscus polionotus (1)
Vitis x champinii x Vitis riparia (1)
dust metagenome (1)
Sinorhizobium meliloti 1021 (1)
Pseudomonas protegens (1)
Dehalococcoides (1)
Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821 (1)

Organisms

Homo sapiens (5)
Mus musculus (2)
Drosophila melanogaster (1)
gut metagenome (1)
Arabidopsis thaliana (1)
Rattus norvegicus (1)
Gallus gallus (1)

Repository

biostudies-arrayexpress (556)
pride (176)
MetaboLights (90)
EGA (51)
MassIVE (38)
ENA (15)
PanoramaPublic (7)
BioModels (5)
GNPS (5)
jPOST (5)
PeptideAtlas (5)
dbGaP (3)
geo (2)
iProX (1)
PAXDB (1)

Tissue

Cell culture (30)
Epithelial cell (17)
Brain (12)
Lung (6)
Whole body (5)
B cell (5)
Cell suspension culture (4)
Blood plasma (4)
Stem cell (4)
HeLa cell (4)
Fibroblast (4)
Primary cell (4)
Permanent cell line cell (4)
Kidney (4)
Colon (4)
Cerebrospinal fluid (3)
Liver (3)
Blood cell (3)
Epithelial cell of lung (2)
Embryonic stem cell (2)
Skin (2)
Plant cell (2)
Macrophage (2)
Blood serum (2)
Heart (2)
Photosynthetic cell (2)
Leaf (2)
Monocyte (2)
T cell (2)
Blood (2)

Disease

Disease free (6)
COVID-19 (5)
Influenza (4)
Chronic lymphocytic leukemia (3)
Alzheimer's disease (3)
Giardiasis (3)
Rheumatoid arthritis (2)
Normal (2)
Pulmonary neuroendocrine tumor (2)
Avian influenza (2)
Type 1 diabetes mellitus (2)
Human immunodeficiency virus infectious disease (2)
Melanoma (2)
Cardiovascular system disease (2)
Brain cancer (2)
Malignant neoplasm of ovary (2)
Lung Cancer (1)
Aviremic HIV (1)
Lung adenocarcinoma (1)
B-cell lymphoma (1)
Colonic adenocarcinoma (1)
Infant SGA (1)
Breast carcinoma (1)
Healthy (1)
Global developmental delay (1)
Hereditary spastic paraplegia 52 (1)
Hereditary spastic paraplegia 51 (1)
Hereditary spastic paraplegia 50 (1)
Hereditary spastic paraplegia 47 (1)
Genetic disease (1)

Technology Type

Mass Spectrometry (176)
Shotgun proteomics (89)
Mass spectrometry (73)
Bottom-up proteomics (39)
Affinity purification coupled with mass spectrometry proteomics (21)
Data-independent acquisition (17)
Data-dependent acquisition (15)
NMR spectroscopy (11)
Mass spectrometry assay (9)
Top-down proteomics (7)
SWATH MS (6)
Gel-based experiment (5)
All-ion fragmentation (3)
SRM/MRM (3)
Chemical cross-linking coupled with mass spectrometry proteomics (2)
Illumina Genome Analyzer IIx, Illumina Genome Analyzer II, Affymetrix U219 (1)
Illumina HiSeq 2500 (1)
Illumina Infinium 1.2M (1)
Illumina HumanExome-12v1_A-GenCall, zCall, GenoSNP, - Illuminus (1)
Illumina HiSeq 2000 (1)
Unknown (1)
SomaScan affinity proteomics (1)
RNA mass spectrometry (1)
Immunopeptidomics (1)

Instrument Platform

Q Exactive Plus (8)
Q Exactive (6)
Illumina NovaSeq 6000 (5)
Orbitrap Fusion Lumos (5)
Illumina HiSeq 2000 (4)
LTQ Orbitrap Velos (4)
TSQ Quantiva (4)
Illumina MiSeq (3)
Illumina HiSeq 4000 (3)
6510 Quadrupole Time-of-Flight LC/MS (3)
Q Exactive HF-X (3)
Illumina HiSeq 2500 (2)
NextSeq 500 (2)
In-house built IMS-MS with Agilent TOF MS (2)
LTQ Velos ETD (2)
Thermo Scientific LTQ FT Ultra (2)
6520A Quadrupole Time-of-Flight LC/MS (2)
QExactive (2)
LTQ Orbitrap Elite (2)
LTQ Orbitrap XL (2)
Orbitrap Eclipse (2)
Q Exactive HF (2)
10x Chromium with a target of 5,000 cells. Chromium Single Cell 3’ Library & Gel Bead Kit v2 (1)
10X Genomics reagent kit (1)
454 GS FLX (1)
GenePix 4000B [Axon Instruments] (1)
NA (1)
NextSeq 2000 (1)
LTQ FT (1)
MaXis (1)

Publication Date

2010 (105)
2014 (76)
2013 (67)
2012 (65)
2011 (64)
2023 (54)
2015 (54)
2022 (41)
2024 (38)
2020 (35)
2021 (35)
2026 (32)
2025 (30)
2016 (30)
2019 (26)
2009 (25)
2017 (24)
2008 (24)
2007 (22)
2018 (21)
2006 (8)
2005 (7)
2004 (3)
2003 (3)

UNIPROT ID/AC

A0A1S3DIT3_DIACI (1)
A0A1S3D013_DIACI (1)
A0A3Q0J6P1_DIACI (1)
A0A3Q0IVV3_DIACI (1)
A0A3Q0JLK0_DIACI (1)
A0A1S3D3Y4_DIACI (1)
A0A1S3DI89_DIACI (1)
A0A3Q0IVU8_DIACI (1)
A0A1S4EMF6_DIACI (1)
A0A3Q0IZD5_DIACI (1)
A0A1S3DQW1_DIACI (1)
A0A1S3DRQ9_DIACI (1)
A0A3Q0ITD4_DIACI (1)
A0A3Q0IKA0_DIACI (1)
A0A3Q0IX82_DIACI (1)
A0A1S3DPA0_DIACI (1)
A0A3Q0JL52_DIACI (1)
A0A3Q0IKL0_DIACI (1)
A0A3Q0IRM1_DIACI (1)
A0A1S4ED27_DIACI (1)
A0A3Q0IYI4_DIACI (1)
A0A1S3D6K7_DIACI (1)
A0A3Q0J9H1_DIACI (1)
A0A3Q0J4T0_DIACI (1)
A0A1S4E8G3_DIACI (1)
A0A1S3DH86_DIACI (1)
A0A1S3DDI9_DIACI (1)
A0A3Q0IWB0_DIACI (1)
A0A1S3DD98_DIACI (1)
A0A3Q0IQE9_DIACI (1)

CHEBI ID

CHEBI:28044 (22)
CHEBI:16335 (22)
CHEBI:25017 (20)
CHEBI:30769 (20)
CHEBI:18186 (19)
CHEBI:16811 (19)
CHEBI:17568 (19)
CHEBI:17750 (19)
CHEBI:17596 (19)
CHEBI:27897 (18)
CHEBI:16708 (17)
CHEBI:18211 (17)
CHEBI:15354 (17)
CHEBI:17368 (17)
CHEBI:25094 (16)
CHEBI:15891 (16)
CHEBI:26271 (15)
CHEBI:28300 (15)
CHEBI:16750 (15)
CHEBI:15318 (15)
CHEBI:16737 (15)
CHEBI:28865 (15)
CHEBI:18237 (14)
CHEBI:22660 (14)
CHEBI:18257 (14)
CHEBI:24898 (14)
CHEBI:27266 (14)
CHEBI:17509 (14)
CHEBI:7916 (14)
CHEBI:67079 (2)

Metabolite Name

Adenosine (11)
Leucine (8)
Methionine (8)
Tyrosine (8)
Phenylalanine (8)
Xanthine (8)
L-Phenylalanine (8)
Xanthine (7)
Uracil (7)
Taurocholic acid (7)
Oleic acid (7)
Creatine (7)
L-Tyrosine (7)
Xanthosine (6)
Inosine (6)
Succinate (6)
Leucine (6)
Citrulline (6)
Ornithine (6)
Taurine (6)
Lysine (6)
Lactate (6)
Guanine (6)
Cytosine (6)
Proline (6)
Adenine (6)
Creatinine (6)
Inosine (6)
Pantothenic acid (5)
Glutamate (5)

First Public Date

2014 (5)
2022 (3)
2025 (2)
2018 (2)
2021 (1)
2020 (1)
2013 (1)

Modelling Approach

Ordinary differential equation model (3)
Physiologically based pharmacokinetic model (2)

Lab affiliation

Icahn School of Medicine at Mount Sinai (5)
University of California San Francisco (4)
Division of Genetic and Genomic Medicine, Department of Pediatrics, UPMC Children's Hospital of Pittsburgh, Pittsburgh, USA (3)
Pacific Northwest National Laboratory (3)
Professor Emeritus Department of Chemistry The University of Texas at San Antonio Effective July 1, 2026: Johnson Foundation Professor of Chemical Enzymology Department of Biochemistry and Biophysics, Perelman School of Medicine Department of Chemistry, School of Arts and Sciences University of Pennsylvania, Philadelphia, PA 19104 (2)
Medical Research Council (MRC) Protein Phosphorylation and Ubiquitylation Unit, School of Life Sciences, University of Dundee, Dow Street, Dundee DD1 5EH, UK (2)
Department of Biochemistry UT Southwestern Medical Center (2)
USDA-ARS, Boyce Thompson Institute, Cornell University (2)
Department of Cell and Developmental Biology, Neuroscience Graduate Program, Department of Neurology University of Michigan Medical School, Ann Arbor, MI 48109-2200 (2)
Massachusetts Institute of Technology (2)
Proteomics (2)
USDA-ARS, Cornell University, Boyce Thompson Institute; Ithaca, NY, USA (2)
USDA ARS Robert W. Holley Center Ithaca, NY 14853 (1)
Department of Developmental, Molecular and Chemical Biology Tufts University School of Medicine Boston MA 02111 (1)
Stanford University School of Medicine (1)
Mayo Clinic, Rochester, MN (1)
School of Pharmacy,Lanzhou University (1)
Department of Cellular and Molecular Pharmacology, University of California San Francisco, USA (1)
Dept. Cellular Molecular Pharmacology, University of San Francisco (UCSF), USA (1)
Department of Microbiology; Icahn School of Medicine at Mount Sinai; New York, NY, 10029; USA (1)
Assistant Professor Department of Neurology (1)
Regional Medical Research Centre, Indian Council of Medical Research, Port Blair, India (1)
Weizmann Institute of Science Israel (1)
1.Department of Medical Oncology, Inselspital, Bern University Hospital, University of Bern, 3010 Bern, Switzerland. 2.Department for BioMedical Research, University of Bern, 3008 Bern, Switzerland. 3. Conway Institute for Biomolecular and Biomedical Research, University College Dublin, Dublin D04 V1W8, Ireland. (1)
Microbiology department at the Icahn School of Medicine atMount Sinai (1)
Biology Department, University of Washington, Seattle, WA (1)
Max Planck Institute of Immunobiology and Epigenetics Freiburg, Germany (1)
Department of Molecular Medicine, The Scripps Research Institute (1)
Univeristy of Notre Dame (1)
NINDS Clinical Proteomics Unit National Institutes of Health (1)

IsPrivate

False (5)

Submitter Keywords

TransQST (2)

Modification

Not available (2)
2x(15)N labeled L-lysine (1)
4x(15)N labeled L-arginine (1)
4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (346)
RNA-seq of coding RNA (50)
Unknown experiment type (44)
ChIP-seq (24)
ChIP-chip by tiling array (20)
Methylation profiling by array (10)
Comparative genomic hybridization by array (9)
Other (9)
Methylation profiling by high throughput sequencing (9)
RNA-seq of non coding RNA (9)
DNA-seq (6)
ChIP-chip by array (5)
RNA-seq of coding RNA from single cells (4)
Genotyping by array (3)
Transcription profiling by tiling array (2)
ATAC-seq (2)
Single nucleus RNA sequencing (1)
MicroRNA profiling by array (1)
RNA-seq of total RNA (1)

Release Date

2022 (1243)
2025 (1224)
2023 (1153)
2021 (1142)
2024 (1102)
2020 (851)
2019 (763)
2018 (663)
2015 (569)
2016 (564)
2017 (540)
2014 (517)
2013 (393)
2012 (374)
2011 (319)
2010 (292)
2009 (187)
2026 (174)
2008 (133)
2007 (74)
2005 (49)
2006 (41)
2004 (24)
2003 (24)
2001 (16)
2002 (13)
2000 (11)
1999 (8)
1998 (5)
1997 (3)

Previous page
1 / 1288
You're on page 1
page 2
page 3
page 4
page 5
page ...
page 1288
Next page

Sort by:

Relevance

Page size

Evidence for quorum sensing and differential metabolite production by Ruegeria pomeroyi in response to DMSP

Microbial alteration and remineralization of organic matter in the ocean play essential roles in the carbon cycle. The impact of individual compounds as either growth substrates or infochemicals is still poorly constrained in models, particularly for organisms with relatively versatile genomes. Here...

2015-01-29 | MTBLS157 | MetaboLights

Effect of ibrutinib with R-CHOP chemotherapy in genetic subtypes of DLBCL.

Not available

S-EPMC8722194 | biostudies-literature

Expression profiles of Arabidopsis thaliana Col-0 seedlings and seedlings of a mutant impaired in cytoplasmic calcium elevation in response to cellotriose treatment (Johnson et al., 2017)

The endophytic fungus Piriformospora indica is a member of Sebacinales. It colonizes the roots of many plant species including the model plant Arabidospis thaliana (Peskan-Berghofer et al. 2004). P. indica promotes plant growth (Peskan-Berghofer et al. 2004), seed production (Shahollari et al. 2007)...

ORGANISM(S): Arabidopsis thaliana

2018-02-09 | GSE98880 | GEO

Identification of neoantigens in oesophageal adenocarcinoma

We present data from tissues of seven oesophageal adenocarcinomas of CD4 and CD8 T cell epitopes eluted from the cell surface using mass spectrometry (immunopeptidomics) of presented HLA bound peptides.This dataset forms part of the publication:Nicholas, B., Bailey, A., McCann, K.J., Wood, O., Walke...

ORGANISM(S): Homo sapiens (Human)

2022-09-27 | PXD031108 | Pride