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TranscriptomicsTranscription start site identification in wild type Escherichia coli
RNAseq was used to map transcription start sites globally in wild type Escherichia coli. Total RNA was isolated from cells grown in LB media until exponential phase.
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2021-04-16 | E-MTAB-9655 | biostudies-arrayexpress
TranscriptomicsCo-culture of C. albicans with bacteria
Transcriptional profiling of C. albicans when monocultured in suspension culture or in biofilms compared to when co-cultured with C. perfringens in suspension culture, or with E. coli, K. pneumoniae, E. faecalis, C. perfringens, or B. fragilis in biofilms, or in the presence of N-acetylglucosamine ...
ORGANISM(S): Candida albicans 
2014-03-03 | E-GEOD-55026 | biostudies-arrayexpress
TranscriptomicsTranscription 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
TranscriptomicsGlobal gene expression profile of colon from wild-type and AE2-knockout mice.
The objective of this study was to identify changes in gene expression levels between wild-type and AE2-knockout colon. 7 wild-type and 7 AE2-null colon RNA samples were compared to identify genes that are differentially expressed in the colon of AE2 knockout mice. Total RNA was collected from both ...
ORGANISM(S): Mus musculus 
2010-04-11 | E-GEOD-19075 | biostudies-arrayexpress
TranscriptomicsHigh resolution temporal profiling of gene expression during Arabidopsis leaf development (senescence process)
Leaf senescence is an essential developmental process that involves altered regulation of thousands of genes and changes in many metabolic and signaling pathways resulting in massive physiological and structural changes in the leaf. The regulation of senescence is complex and although several senesc...
ORGANISM(S): Arabidopsis thaliana 
2011-03-24 | E-GEOD-22982 | biostudies-arrayexpress
TranscriptomicsGlobal gene expression profile of small intestine from wild-type and NKCC1 (SLC12A2)-knockout mice.
The objective of this study was to identify changes in gene expression levels between wild-type and NKCC1-knockout small intestine. 6 wild-type and 6 NKCC1-knockout small intestine RNA samples were compared. Total RNA was collected from both male and female 8-week old wild-type and NKCC1-null mice ...
ORGANISM(S): Mus musculus 
2010-11-17 | E-GEOD-19117 | biostudies-arrayexpress
TranscriptomicsGlobal gene expression profile of small intestine from wild-type and CFTR-knockout mice.
The objective of this study was to identify changes in gene expression levels between wild-type and CFTR-knockout small intestine. CFTR-knockout mice (provided by Dr. Lane Clarke of the University of Missouri) were maintained on colyte. Keywords: gene expression comparison Four wild-type and four C...
ORGANISM(S): Mus musculus 
2010-05-25 | E-GEOD-8763 | biostudies-arrayexpress
TranscriptomicsArabidopsis defense against Botrytis cinerea: chronology and regulation deciphered by high-resolution temporal transcriptomic analysis (time series)
A novel experimental design strategy (A Mead et al, in preparation), based on the principle of the M-bM-^@M-^\loop designM-bM-^@M-^], was developed to enable efficient extraction of information about key sample comparisons using a two-colour hybridisation experimental system. With 192 distinct sampl...
ORGANISM(S): Arabidopsis thaliana 
2012-10-02 | E-GEOD-29642 | biostudies-arrayexpress
TranscriptomicsGlobal gene expression profile of stomach from wild-type and NHE4-knockout mice.
The objective of this study was to identify changes in gene expression levels between wild-type and NHE4-knockout stomach. 6 wild-type and 6 NHE4-knockout stomach RNA samples were compared. Total RNA was collected from both male and female adult (between 8 and 12 weeks of age) wild-type and NHE4-nu...
ORGANISM(S): Mus musculus 
2010-07-07 | E-GEOD-19099 | biostudies-arrayexpress
TranscriptomicsInvestigation of gene expression signature induced by Alk5TD (active type I TGF-beta receptor)
BT474 cells stably expressing Alk5TD or vector (BT474-Alk5TD and BT474-pBMN, respectively) were compared for gene expression. Genes that were differentially expressed between the two cell lines were collected as the signature induced by Alk5TD expression. Keywords: Comparison of two cell types (BT47...
ORGANISM(S): Homo sapiens 
2008-04-29 | E-GEOD-11293 | biostudies-arrayexpress
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