Pulse-light - OmicsDI

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Unknown (997)
Transcriptomics (213)
Proteomics (91)
Genomics (57)
Metabolomics (6)
Models (3)
Other (1)

Organisms

Chlamydomonas reinhardtii (84)
Enterococcus mundtii CRL35 (84)
Mus musculus (63)
Arabidopsis thaliana (32)
Rhizobium leguminosarum (30)
Homo sapiens (20)
Rattus norvegicus (20)
Drosophila melanogaster (16)
Gallus gallus (6)
Candida albicans (4)
Sus scrofa (4)
Danio rerio (3)
Schizosaccharomyces pombe (2)
Salmonella enterica subsp. enterica serovar Typhimurium str. SL1344 (2)
Bos taurus (2)
Anopheles gambiae (2)
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Mus (1)
Aplysia californica (1)
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Organisms

Arabidopsis thaliana (10)
Mus musculus (9)
Synechococcus elongatus PCC 7942 = FACHB-805 (2)
Drosophila melanogaster (2)
Gallus gallus (2)
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mixed DNA library (1)
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freshwater metagenome (1)
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Repository

biostudies-arrayexpress (208)
pride (84)
ENA (46)
geo (14)
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Tissue

Cell culture (21)
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Leave without petiole (1)
Petiole (1)
Subcutaneous tissue (1)
Mesenchymal epithelium (1)
Chorion (1)
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Gastrointestinal mucosa (1)
Osteosarcoma cell (1)
Cardiac gastric gland (1)
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Meiotic cell (1)
Dental pulp (1)

Disease

Disease free (4)
Avian influenza (2)
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Influenza (2)
Breast cancer (2)
Acute leukemia (2)
Hypertension (1)
Subarachnoid hemorrhage NOS (1)
Squamous cell carcinoma has accession C0007137 in DiseaseStateDatabase NCI_Thesaurus (1)
Insulin resistance (1)
Infected (1)
Mock infected (1)
Porphyria NOS (1)
None- acute control (1)
Head and neck squamous cell carcinoma (1)
Mastitis (1)
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None- Acute Control (1)
Healthy (1)
Normal (1)
Not Available (1)
Neutropenia (1)
Ciliopathy (1)
Myocardial infarction (1)
Esophageal carcinoma (1)
Sarcoma (1)
Inflammatory bowel disease (1)
Chronic myeloid leukemia (1)
Cardiovascular system disease (1)

Technology Type

Mass Spectrometry (84)
Shotgun proteomics (64)
Bottom-up proteomics (9)
Gel-based experiment (8)
Mass spectrometry (6)
Data-dependent acquisition (5)
Affinity purification coupled with mass spectrometry proteomics (5)
Metaproteomics (1)
Mass spectrometry imaging (1)
Affinity proteomics (1)
DiaPASEF (1)
HDMSE (1)
SWATH MS (1)
Data-independent acquisition (1)
SRM/MRM (1)

Instrument Platform

ScanArray 5000 [PerkinElmer] (5)
Illumina NovaSeq 6000 (4)
NextSeq 500 (3)
Axon- GenePix4000B (2)
ScanArray Express HT (2)
Illumina HiSeq 2500 (2)
Illumina HiSeq 2000 (2)
Illumina HiSeq 4000 (2)
Q Exactive (2)
Bio-Rad Mini-PROTEAN electrophoresis system and wet transfer cassettes, (1)
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428 [Affymetrix] (1)
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G2565AA DNA microarray scanner [Agilent] (1)
NextSeq 2000 (1)
Instrument (1)
Orbitrap Fusion (1)
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Pegasus 4D (1)
Gas Chromatography MS - Positive (GC-MS (Positive)) (1)
Liquid Chromatography MS - Positive (LC-MS (Positive)) (1)
Gas Chromatography MS - positive (1)
5975C Series GC/MSD (Agilent) (1)
MS Imaging - (1)

Publication Date

2010 (39)
2013 (27)
2008 (24)
2015 (21)
2009 (21)
2016 (20)
2023 (15)
2024 (14)
2022 (14)
2018 (13)
2005 (13)
2017 (11)
2020 (11)
2019 (11)
2011 (11)
2012 (10)
2007 (10)
2021 (9)
2014 (9)
2025 (9)
2026 (6)
2006 (5)
2004 (1)

UNIPROT ID/AC

P49021 (1)
P07663 (1)
O00327 (1)
Q16526 (1)
O15534 (1)

ENSEMBL ID

ENST00000403290 (1)
ENST00000008527 (1)
ENST00000317276 (1)

CHEBI ID

CHEBI:33508 (3)
CHEBI:17822 (3)
CHEBI:18237 (3)
CHEBI:17754 (3)
CHEBI:16335 (3)
CHEBI:15756 (3)
CHEBI:61572 (2)
CHEBI:24168 (2)
CHEBI:28623 (2)
CHEBI:33984 (2)
CHEBI:69081 (2)
CHEBI:10642 (2)
CHEBI:28260 (2)
CHEBI:33511 (2)
CHEBI:22605 (2)
CHEBI:24149 (2)
CHEBI:22599 (2)
CHEBI:33942 (2)
CHEBI:17992 (2)
CHEBI:16113 (2)
CHEBI:26271 (2)
CHEBI:25094 (2)
CHEBI:22660 (2)
CHEBI:18186 (2)
CHEBI:28757 (2)
CHEBI:17234 (2)
CHEBI:18257 (2)
CHEBI:24898 (2)
CHEBI:17505 (2)
CHEBI:33699 (1)

Metabolite Name

Galactose (2)
Glycine (2)
Glycerol (2)
Campesterol (2)
Glucose (2)
Galactosylglycerol (2)
2-Monolinoleoylglycerol (1)
Monohexadecanoylglycerol (1)
Monopalmitoylglycerol (1)
D-galactopyranose (1)
Decyl oleate (1)
Palmityl palmitate (1)
Unknown_38.614_361 (1)
Unknown_36.412_574 (1)
Unknown_29.563_369 (1)
Unknown_27.218_375 (1)
Unknown_25.885_337 (1)
Unknown_25.003_319.2 (1)
Unknown_19.742_253 (1)
Unknown_19.711_333 (1)
Unknown_19.079_292 (1)
Unknown_18.966_231 (1)
Unknown_17.300_331 (1)
Unknown_16.158_217 (1)
Unknown_15.063_245 (1)
Unknown_13.662_233 (1)
Unknown_12.040_158 (1)
Unknown sugar_30.850_204 (1)
Unknown sugar_24.246_319.2 (1)
Unknown sugar alcohol_18.028_319 (1)

First Public Date

2014 (12)
2024 (11)
2022 (4)
2021 (3)
2019 (3)
2017 (3)
2025 (2)
2023 (2)
2016 (2)
2015 (2)
2018 (1)
2013 (1)

Modelling Approach

Ordinary differential equation model (3)

Lab affiliation

Cellzome (4)
DIMEVET Università degli Studi di Milano (3)
Department of Biochemistry and Functional Proteomics, Institute of Biology II, Faculty of Biology and BIOSS Centre for Biological Signalling Studies, University of Freiburg, 79104 Freiburg im Breisgau, Germany (3)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (2)
Institute of Biochemistry (IBC, ETHZ) (1)
CECAD Research Center, University of Cologne (Institute for Genetics) Joseph-Stelzmann-Str. 26 50931 Cologne Germany (1)
Department of Biochemistry, Microbiology and Immunology Institute of Systems Biology University of Ottawa (1)
Department of Cell Biology Université de Genève Faculté des Sciences Sciences III 30, quai Ernest-Ansermet CH - 1211 Genève 4 SWITZERLAND (1)
Pacific Northwest National Lab (1)
German Cancer Research Center, Division Proteomics of Stem Cells and Cancer, Heidelberg, Germany Heidelberg University, Medical Faculty, Heidelberg, Germany (1)
CECAD Institute, University of Cologne Joseph-Stelzmann-Straße 26 50931 Cologne Germany (1)
Associate Professor in Proteomics, Head of Proteomics, Centre for Proteomic Research, University of Southampton, UK (1)
Institution of Cellular and Organismic Biology Academia Sinica (1)
DIMEVET università degli Studi di Milano (1)
DIMEVET Università di Milano (1)
Research Director at INRAE, Clermont Auvergne University, VetAgro Sup, Herbivores Joint Research Unit (UMRH) FRANCE (1)
Laboratoire Réponse Inflammatoire et Spectrométrie de Masse (PRISM), Inserm U1192 - Université de Lille, Faculté des Sciences, Campus Cité Scientifique, Bât SN3, 1er étage, F-59655 Villeneuve d’Ascq Cedex. Phone: +33 (0)3 20 43 41 94; Fax: +33 (0)3 20 43 40 54 (1)
MRC Institute of Genetics and Molecular Medicine, Cancer Research UK Edinburgh Centre, The University of Edinburgh ( lab head ) Masaryk Memorial Cancer Institute (1)
Crop Genetics John Innes Centre Norfolk United Kingdom (1)
Immonolgy and cell biology department, université de sherbrooke (1)
Max-Delbrück Center for Molecular Medicine (1)
Proteome Dynamics, MDC Berlin (1)
department of internal medicine, university of new mexico (1)
Department of Microbiology, Faculty of Medicine, Chulalongkorn University, Pathumwan, Bangkok, Thailand (1)
Department of Molecular and Experimental Medicine, Department of Chemical Physiology, The Scripps Research Institute, USA (1)
University of Lausanne (1)
Department of Chemical Biology College of Chemistry and Molecular Engineering Peking University (1)
Institute of Molecular Systems Medicine, Goethe University Frankfurt (1)
Instituto de Agricultura Sostenible-CSIC Av. Menéndez Pidal s/n Campus Alameda del Obispo Apartado 4084, 14080 Córdoba, Spain (1)
NIH/NHLBI Cardiac Physiology Systems Biology Center Bethesda, MD, USA (1)

IsPrivate

False (3)

Classification

fungi (1)

Modification

2x(15)N labeled L-lysine (2)
4x(15)N labeled L-arginine (2)
4 (1)

Study type

Transcription profiling by array (152)
RNA-seq of coding RNA (17)
ChIP-chip by tiling array (10)
ChIP-chip by array (6)
ChIP-seq (6)
Unknown experiment type (3)
Methylation profiling by high throughput sequencing (3)
Transcription profiling by SAGE (2)
Comparative genomic hybridization by array (2)
Other (2)
High-throughput sequencing (1)
Animal - High-throughput sequencing (1)
CLIP-seq (1)
Single nucleus RNA sequencing (1)
RNA-seq of coding RNA from single cells (1)

Release Date

2021 (113)
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2020 (82)
2017 (72)
2018 (66)
2016 (63)
2015 (59)
2019 (53)
2013 (45)
2010 (42)
2014 (38)
2009 (27)
2008 (26)
2011 (21)
2012 (20)
2026 (16)
2005 (16)
2007 (10)
2006 (8)
2004 (4)
2003 (2)
2002 (2)
2001 (1)

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Transcription profiling of mouse SCN after 30-min light pulse

The transmission of information about the photic environment to the circadian clock involves a complex array of neurotransmitters, receptors, and second messenger systems. Using laser capture microscopy and microarray analysis, a population of genes rapidly induced by light in the suprachiasmatic n...

ORGANISM(S): Mus musculus

2008-06-15 | E-GEOD-6904 | biostudies-arrayexpress

Umbilicaria pustulata light pulse and genotype-dependent RNA-seq analyses

Analysis of the effect of light pulse and genotype on lichen metatranscription

PRJEB72275 | ENA

Time-of-day-dependent light-induction of gene expression in the chicken pineal gland

Light has a strong effect on whole organism physiology, such as the circadian rhythms that are phase delayed and advanced by light given at early and late subjective night, respectively. Despite the importance of the phase-dependent light responses, little is known about the underlying molecular mec...

ORGANISM(S): Gallus gallus

2011-03-08 | E-GEOD-21915 | biostudies-arrayexpress

Acute effects of light on alternative splicing in light-grown plants

We report the results of a genome-wide analysis of AS in Arabidopsis thaliana plants exposed to a 2h light pulse given in the middle of the night, a treatment that simulates the effects of early dawn or late dusk signals. This light affects the plant transcriptome at multiple regulatory layers, and...

ORGANISM(S): Arabidopsis thaliana

2016-08-09 | E-GEOD-68560 | biostudies-arrayexpress

Transcriptional characterization of Arabidopsis thaliana seeds treated with a red- or far red-light pulse

PRJNA553510 | ENA

Molecular changes in the proteome of Bacillus pumilus spores upon UV and pulse light treatment.

The proteome of Bacillus pumilus spores subjected to different inactivation treatments was established by shotgun proteomics and compared with the proteome of untreated spores. Treatments included UV-C and Pulse-Light inactivation, either on spores in water, or on spores sprayed onto a polystyrene s...

ORGANISM(S): Bacillus pumilus

2025-05-07 | PXD052144 | Pride

Zebrafish Light Pulse

Transcriptional profiling of light response in the zebrafish at several organizational levels: the whole animal, the organ and the cell. Exposure of larvae, heart organ cultures and cell culture cells to light pulses of 1 and 3 hours duration and measurement of changes in gene expression compared to...

ORGANISM(S): Danio rerio

2011-03-01 | E-MTAB-381 | biostudies-arrayexpress

Transcriptional characterization of Arabidopsis thaliana seeds treated with a red- or far red-light pulse

The goal of this study was to compare the transcriptional profile (RNA-seq) of imbibed Arabidopsis thaliana Columbia-0 ecotype seeds that were treated with a 20 min red or far red pulse. The red-light pulse induces germination.

ORGANISM(S): Arabidopsis thaliana

2019-07-10 | GSE134019 | GEO

Expression analysis of circadian light response in Drosophila

Light is a strong environmental cue that resets the circadian clock rhythm. We have used Affymetrix microarrays to profile the Drosophila head transcriptome response following a brief light pulse during the early night. Comparison of control (un-pulsed) and experimental flies reveal large number of...

ORGANISM(S): Drosophila melanogaster

2014-07-23 | E-GEOD-39578 | biostudies-arrayexpress

Mus musculus

Expression data from mouse SCN after 30-min light pulse

PRJNA98153 | ENA

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