Forrest M S MS - OmicsDI

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Unknown (63)
Transcriptomics (4)
Metabolomics (2)
Proteomics (2)

Organisms

Bacillus subtilis subsp. subtilis str. 168 (2)
Homo sapiens (2)
Cereibacter sphaeroides (1)
Mus musculus (1)

Repository

biostudies-arrayexpress (4)
MetaboLights (2)
pride (2)

Tissue

Brain (1)
Heart (1)

Technology Type

Mass spectrometry (2)
Mass Spectrometry (2)
Shotgun proteomics (2)
SWATH MS (1)

Instrument Platform

NextSeq 500 (3)
Q Exactive (2)
Illumina NovaSeq 6000 (1)

Publication Date

2021 (3)
2025 (2)
2022 (1)
2014 (1)
2023 (1)

CHEBI ID

CHEBI:132188 (2)
CHEBI:132948 (2)
CHEBI:132966 (2)
CHEBI:133032 (2)
CHEBI:133172 (2)
CHEBI:133223 (2)
CHEBI:133460 (2)
CHEBI:133469 (2)
CHEBI:133530 (2)
CHEBI:133534 (2)
CHEBI:134538 (2)
CHEBI:138368 (2)
CHEBI:143243 (2)
CHEBI:145970 (2)
CHEBI:15318 (2)
CHEBI:15354 (2)
CHEBI:15356 (2)
CHEBI:15428 (2)
CHEBI:15676 (2)
CHEBI:15724 (2)
CHEBI:15728 (2)
CHEBI:15891 (2)
CHEBI:15963 (2)
CHEBI:15978 (2)
CHEBI:15999 (2)
CHEBI:16010 (2)
CHEBI:16020 (2)
CHEBI:1606 (2)
CHEBI:16113 (2)
CHEBI:16244 (2)

Metabolite Name

(R)-3-hydroxybutyrylcarnitine (2)
1-methyl-4-imidazoleacetate (2)
1-methylhistidine (2)
2'-O-methylcytidine (2)
2'-O-methyluridine (2)
2'-deoxyuridine (2)
2-aminoadipate (2)
2-aminoheptanoate (2)
2-hydroxy-3-methylvalerate (2)
2-hydroxydecanoate (2)
2-hydroxyglutarate (2)
2-hydroxypalmitate (2)
2-hydroxystearate (2)
2-oxoarginine* (2)
3-(3-amino-3-carboxypropyl)uridine* (2)
3-amino-2-piperidone (2)
3-aminoisobutyrate (2)
3-formylindole (2)
3-hydroxy-2-ethylpropionate (2)
3-hydroxy-3-methylglutarate (2)
3-hydroxyadipate* (2)
3-hydroxyisobutyrate (2)
3-methyl-2-oxobutyrate (2)
3-methyl-2-oxovalerate (2)
3-methylhistidine (2)
3-phosphoglycerate (2)
4-guanidinobutanoate (2)
4-hydroxyphenylpyruvate (2)
4-imidazoleacetate (2)
4-methyl-2-oxopentanoate (2)

Study type

Cell line - High-throughput sequencing (1)
Other (1)
RNA-seq of total RNA (1)
RNA-seq of coding RNA (1)

Release Date

2021 (13)
2022 (12)
2014 (6)
2023 (5)
2025 (4)
2024 (4)
2020 (4)
2015 (4)
2019 (3)
2009 (3)
2012 (2)
2010 (2)
2018 (1)
2016 (1)
2013 (1)
2007 (1)
2005 (1)

Lab affiliation

Charles Perkins Centre, School of Life and Environmental Sciences, University of Sydney, Camperdown, NSW, Australia. (1)
University of Toronto (1)

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Transcription start site identification in Bacillus subtilis

Cappable-seq was used to map transcription start sites globally in wild type Bacillus subtilis. Total RNA was isolated from cells grown in LB media until exponential phase. RNA corresponding to transcription start sites was capped with a 5' biotin tag, which was used for enrichment via a pull down w...

ORGANISM(S): Bacillus subtilis subsp. subtilis str. 168

2021-04-16 | E-MTAB-8582 | biostudies-arrayexpress

Different xenogeneic silencing strategies in Escherichia coli and Bacillus subtilis are dictated by RNA polymerase promiscuity

Cappable-seq was used to map transcription start sites globally in B. subtilis and E. coli to investigate spurious transcription, and how B. subtilis prevents it.

ORGANISM(S): Bacillus subtilis subsp. subtilis str. 168

2022-01-12 | E-MTAB-10777 | biostudies-arrayexpress

CarD links DNA supercoiling to gene regulation in Rhodobacter sphaeroides

Sequencing datasets produced during the investigation into the function of the CarD transcription factor in Rhodobacter sphaeroides. Sequencing datasets and in vitro biochemical assay reveal CarD is dependant on negative DNA supercoiling for activation of transcription. In this experiment, 4 sets ...

ORGANISM(S): Cereibacter sphaeroides

2025-10-16 | E-MTAB-15087 | biostudies-arrayexpress

Efficacy and safety of direct oral anticoagulants with and without Aspirin: A systematic review and Meta-analysis.

Not available

S-EPMC8958538 | biostudies-literature

Development of a rapid recombinase polymerase amplification assay for the detection of Streptococcus pneumoniae in whole blood.

Not available

S-EPMC4625855 | biostudies-literature

Demographic and Regional Trends in Stroke-Related Mortality in Young Adults in the United States, 1999 to 2019.

Not available

S-EPMC9683653 | biostudies-literature

Evaluation of an artificial intelligence-based medical device for diagnosis of autism spectrum disorder.