Soda K K - OmicsDI

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Transcriptomics (1254)
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Homo sapiens (265)
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2006 (70)
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CHEBI ID

CHEBI:1001 (1)
CHEBI:1002 (1)
CHEBI:10049 (1)
CHEBI:10059 (1)
CHEBI:10066 (1)
CHEBI:10067 (1)
CHEBI:10113 (1)
CHEBI:10194 (1)
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CHEBI:10202 (1)
CHEBI:10246 (1)
CHEBI:10261 (1)
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CHEBI:10270 (1)
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CHEBI:103990 (1)
CHEBI:104012 (1)
CHEBI:104121 (1)
CHEBI:10428 (1)

Metabolite Name

(R)-3-Hydroxybutyric acid (1)
(ÃÂ±)-2-(1-Methylpropyl)-4,6-dinitrophenol (1)
1,3,5-Trihydroxybenzene (1)
10E,12Z-Octadecadienoic acid (1)
12-Hydroxydodecanoic acid (1)
12-Oxo-2,3-dinor-10,15-phytodienoic acid (1)
15-Keto-13,14-dihydroprostaglandin A2 (1)
15-Keto-prostaglandin E2 (1)
16-Hydroxy hexadecanoic acid (1)
16-Methylheptadecanoic acid (1)
1H-Indole-3-carboxaldehyde (1)
2,2-Dimethylsuccinic acid (1)
2,3-Dihydroxybutanedioic acid (1)
2-Hydroxyethanesulfonate (1)
2-Hydroxyvaleric acid (1)
2-Methylglutaric acid (1)
2-O-(alpha-D-glucopyranosyl)-D-glycerate (1)
2-Oxovaleric acid (1)
3,3-Dimethylglutaric acid (1)
3-(3,4-Dihydroxy-5-methoxy)-2-propenoic acid (1)
3-Hydroxyanthranilic acid (1)
3-Hydroxybutyric acid (1)
3-Hydroxycapric acid (1)
3-Hydroxymethylglutaric acid (1)
4-Dodecylbenzenesulfonic Acid (1)
4-Ethylbenzoic acid (1)
4-Hydroxybenzaldehyde (1)
5,6-DHET (1)
6beta-Hydroxytestosterone (1)
7-Ketocholesterol (1)

IsPrivate

False (1)

Submitter Keywords

FROG (1)

Modelling Approach

Constraint-based model (1)

Modification

4'-dihydroxyphenylalanine (1)

Study type

Transcription profiling by array (1047)
RNA-seq of coding RNA (70)
ChIP-seq (34)
Unknown experiment type (27)
Other (23)
Comparative genomic hybridization by array (13)
Transcription profiling by tiling array (9)
ChIP-chip by array (9)
MicroRNA profiling by array (9)
ChIP-chip by tiling array (7)
Genotyping by array (6)
DNA-seq (6)
Methylation profiling by array (5)
Cell line - High-throughput sequencing (4)
RNAi profiling by array (4)
Methylation profiling by high throughput sequencing (4)
Animal - High-throughput sequencing (3)
RNA-seq of total RNA (3)
RNA-seq of non coding RNA (3)
GRO-seq (2)
High-throughput sequencing (2)
Bisulfite-seq (2)
RNA-seq of coding RNA from single cells (2)
MNase-seq (1)
MicroRNA profiling by high throughput sequencing (1)
Proteomic profiling by array (1)
CUT&RUN (1)

Release Date

2010 (287)
2008 (125)
2011 (122)
2007 (106)
2013 (102)
2012 (99)
2009 (91)
2006 (72)
2014 (71)
2015 (61)
2005 (56)
2016 (55)
2004 (50)
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2021 (32)
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2024 (29)
2017 (24)
2019 (23)
2018 (16)
2003 (12)
2026 (5)
1998 (2)
2002 (1)
2000 (1)
1999 (1)
1993 (1)

Lab affiliation

Department of Orthopaedic Surgery, Graduate School of Biomedical and Health Sciences, Hiroshima University, Japan Medical Center for Translational and Clinical Research, Hiroshima University Hospital, Hiroshima, Japan (lab head) (1)
Geobiology lab, Department of Earth Sciences, Pondicherry University, Puducherry, India (1)
Neurotoxin Research Group, School of Life Sciences, The University of Technology Sydney, Ultimo, NSW 2007, Australia; kenneth.rodgers@uts.edu.au (K.J.R.) (1)
University of Greifswald, Institute of Microbiology, Department of Microbial Physiology and Molecular Biology, Greifswald, Germany (1)

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Unexpected complexity of the Escherichia coli K-12 transcriptome architecture revealed by single nucleotide resolution RNA sequencing

To investigate the architecture of the E. coli K-12 transcriptome, we used two RNA-Seq technologies to analyze strand-specific transcription at single-nucleotide resolution. We analyzed the data by using an organizational schema to annotate the promoters and terminators that define transcription uni...

ORGANISM(S): Escherichia coli K-12

2014-07-08 | E-GEOD-52059 | biostudies-arrayexpress

Hsal_potassium_limitation

The genome-wide transcription profiles of the archaeon Halobacterium salinarum grown in potassium-limited medium was compared to the profile of H. sal. cells grown under ample potassium concentration.

ORGANISM(S): Halobacterium salinarum

2011-07-01 | E-MEXP-3225 | biostudies-arrayexpress

Gene expression profile of rice shoot in response to macronutrient deficiency

Macronutrients are pivotal elements for proper plant growth and development. We performed microarray analysis of rice shoot under nitrogen (N), phosphorus (P), and potassium (K) deficiency conditions to obtain a global view of gene regulations associated with plant response to essential nutrients. W...

ORGANISM(S): Oryza sativa Japonica Group

2015-08-12 | E-GEOD-66935 | biostudies-arrayexpress

Overlapping and unique responses of E. coli to adverse conditions

In the present study we have determined the global gene expression and biomolecular composition in an Escherichia coli model strain exposed to ten adverse conditions (sodium chloride, ethanol, glycerol, two acids (hydrochloric acid and acetic acid), sodium hydroxide, heat (46Â°C) and cold (15Â°C) as...

ORGANISM(S): Escherichia coli str. K-12 substr. MG1655

2010-05-18 | E-GEOD-11041 | biostudies-arrayexpress

Lymph miRNA in FcgRIIA transgenic mice, in K/BxN rheumatoid arthritis

Thoracic lymph was collected from FcgRIIA transgenic mice, after 7 day of K/BxN arthritis. Cells were removed by centrifugation, and extra-cellular microRNAs were assessed by short RNA Illumina sequencing (Arraystar Inc, 16-30 nt). 3 control (injected with PBS) and 3 K/BxN (injected I.P. with 150 µL...

ORGANISM(S): Mus musculus

2020-04-02 | E-MTAB-8171 | biostudies-arrayexpress

HepG2 treated with two Polycyclic Aromatic Hydrocarbons (benzo[a]anthracene & benzo[k]fluoranthene)

To gain deeper insight into the mechanism of toxicity, it is important to identify and characterize miRNAs profiles involved in responses to specific classes of toxicants in conjunction with their impact on gene expression levels. However, few reports have described the effects of toxicants on miRNA...

ORGANISM(S): Homo sapiens

2013-07-22 | E-GEOD-49068 | biostudies-arrayexpress

Transcription profiling by array for comparison of industrial Escherichia coli strains on growth, transcriptome and proteome level in batch cultivations to identify strain specific features (subexperiment K-12 platform)

The objective of the current study was to evaluate the performance of frequently used E. coli K-12 strains HMS174 and RV308 in the context of industrial cultivations. To meet this objective, we carried out batch cultivations with high-glucose media in computer-controlled bioreactors and applied tran...

ORGANISM(S): Escherichia coli

2013-08-19 | E-MARS-20 | biostudies-arrayexpress

Pharmacokinetics of Sucralose and Acesulfame-Potassium in Breast Milk Following Ingestion of Diet Soda.

Not available

S-EPMC5825238 | biostudies-literature

The effect of using light emitting diodes and fluorescent lamps as different light sources in growth inhibition tests of green alga, diatom, and cyanobacteria.

Not available

S-EPMC7895407 | biostudies-literature

Three putative cation/proton antiporters from the soda lake alkaliphile Alkalimonas amylolytica N10 complement an alkali-sensitive Escherichia coli mutant.

Not available

S-EPMC2538799 | biostudies-literature