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TranscriptomicsComparative analysis of regulatory elements between Escherichia coli and Klebsiella pneumoniae by genome-wide transcription start site profiling [TSS-Seq]
We report the application of single-molecule-based sequencing technology for high-throughput profiling of transcription start sites for two enterobacteria: Escherichia coli and Klebsiella pneumoniae.By obtaining over fourteen billion bases of sequence from 5' RACE (rapid amplification of cDNA ends) ...
ORGANISM(S): Escherichia coli K-12 
2012-07-30 | E-GEOD-35821 | biostudies-arrayexpress
UnknownA mouse model of Zhu-Tokita-Takenouchi-Kim syndrome reveals indispensable SON functions in organ development and hematopoiesis.
Not available
S-EPMC10972584 | biostudies-literature
ProteomicsCombining high resolution and exact calibration to boost statistical power: A well-calibrated score function for high-resolution MS2
This project reanalzyes data from 4 other projects. Information about the samples can be found in the following four publications. The four samples used in this study include a ocean metaproteome sample, a human sample, a E. coli sample, and a Plamodium falciparum sample. B. N. Pease, E. L. Huttli...
ORGANISM(S): Homo sapiens (Human) Plasmodium falciparum (isolate 3D7) Escherichia coli 
2018-09-19 | PXD009265 | Pride
E. coli Score function Ocean Human Plasmodium 
TranscriptomicsTranscriptomic differences between E. coli B REL606 and K-12 MG1655
Transcriptome profiles were analyzed using the samples taken at the exponential and stationary phases during the cultivation of REL606 and MG1655 in LB medium. At the exponential growth phase, most highly expressed genes of B were those for replication, translation, or nucleotide transport and metab...
ORGANISM(S): Escherichia coli 
2010-05-22 | E-GEOD-13011 | biostudies-arrayexpress
TranscriptomicsDeciphering the Fur transcriptional regulatory network highlights its complex role beyond iron metabolism in Escherichia coli [RNA-seq]
The ferric uptake regulator (Fur) plays a critical role in the transcriptional regulation of iron metabolism in many bacteria. However, the full regulatory potential of Fur beyond iron metabolism remains undefined. Here, we comprehensively reconstructed the Fur transcriptional regulatory network in ...
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2014-09-09 | E-GEOD-54900 | biostudies-arrayexpress
TranscriptomicsExpression analysis of Streptomyces avermitilis NRRL8165 delta-aveI mutant
Investigation of whole genome gene expression level changes in Streptomyces avermitilis delta-aveI mutant, compared to the wild-type strain. The mutants analyzed in this study are further described in Chen L, Lu Y., Chen J, Zhang W, Shu D, Qin Z, Yang S, Jiang W. (2008) Characterization of a negativ...
ORGANISM(S): Streptomyces avermitilis 
2010-05-16 | E-GEOD-16892 | biostudies-arrayexpress
UnknownComplete mitochondrial genome and phylogenetic analysis of the marine red alga Polyopes affinis (Rhodophyta: Halymeniales).
Not available
S-EPMC9341338 | biostudies-literature
TranscriptomicsRescue of KRAS suppression in HCT116 colon cancer cell line
Cancer cells that express oncogenic alleles of RAS typically require sustained expression of the mutant allele for survival, but the molecular basis of this oncogene dependency remains incompletely understood. To identify genes that can functionally substitute for oncogenic RAS, we systematically ex...
ORGANISM(S): Homo sapiens 
2014-07-22 | E-GEOD-55942 | biostudies-arrayexpress
TranscriptomicsKRAS and YAP1 converge to regulate EMT and tumor survival
Cancer cells that express oncogenic alleles of RAS typically require sustained expression of the mutant allele for survival, but the molecular basis of this oncogene dependency remains incompletely understood. To identify genes that can functionally substitute for oncogenic RAS, we systematically ex...
ORGANISM(S): Mus musculus 
2014-07-27 | E-GEOD-56175 | biostudies-arrayexpress
TranscriptomicsCell Intrinsic role of Cox-2 in pancreatic cancer development
Cyclooxygenase-2 (COX-2) is upregulated in pancreatic ductal adenocarcinomas (PDAC). However, how COX-2 promotes PDAC development is unclear. While previous studies have evaluated the efficacy of COX-2 inhibition via the use of non steroidal anti-inflammatory drugs (NSAIDs) or the COX-2 inhibitor ce...
ORGANISM(S): Mus musculus 
2012-06-28 | E-GEOD-38988 | biostudies-arrayexpress
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