Salzberg Steven L SL

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Probing the pan genome of a foodborne bacterial pathogen Listeria monocytogenes

Full title: Probing the pan genome of a foodborne bacterial pathogen Listeria monocytogenes: Implications for its niche adaptation, pathogenesis, and evolution Listeria monocytogenes is a foodborne bacterial pathogen well known for adaptability to diverse environmental and host niches, and a high f...

ORGANISM(S): Listeria monocytogenes EGD-e

2010-04-06 | E-GEOD-20367 | biostudies-arrayexpress

RNAseq of Human Umbilical Vein Endothelial Cells treated with Insulin in the presence or absence of TGF-beta kinase inhibitor SB431542 for 90 minute.

Endothelial cells play many important role during development and development of diseases. Endothelial dysfunction which is commonly seen in diabetes patients is thought to be one of the first step that leads to adverse events such as retinopathy, nephropathy, and atherosclerosis. To examine to whic...

ORGANISM(S): Homo sapiens

2019-01-15 | E-MTAB-6841 | biostudies-arrayexpress

Transcript assembly and abundance estimation from RNA-Seq reveals thousands of new transcripts and switching among isoforms

We introduce an approach to transcript discovery coupled with a statistical model for RNA-Seq experiments that produces estimates of transcript abundances. Our algorithms are implemented in an open source software program called Cufflinks. To test Cufflinks, we sequenced and analyzed more than 430 m...

ORGANISM(S): Mus musculus

2010-04-14 | E-GEOD-20846 | biostudies-arrayexpress

Identification of the hemogenic endothelial progenitor and its direct precursor in human pluripotent stem cell differentiation cultures

Hemogenic endothelium (HE) is the source of HSCs in the developing embryo. In this study we have identified the hemogenic endothelial progenitors and their precursors originating from differentiated H1 cells on OP9 stromal cells. RNA-seq of hemogenic endothelial progenitors and their precursors ori...

ORGANISM(S): Homo sapiens

2012-09-18 | E-GEOD-39661 | biostudies-arrayexpress

Bromodomain protein BRD4 is required for estrogen receptor-dependent transcription and enhancer activation [RNA-Seq]

The estrogen receptor-M-NM-1 (ERM-NM-1) is a transcription factor which plays a critical role in controlling cell proliferation and tumorigenesis by recruiting various cofactors to estrogen response elements (EREs) to induce or repress gene transcription. A deeper understanding of these transcriptio...

ORGANISM(S): Homo sapiens

2014-07-10 | E-GEOD-55922 | biostudies-arrayexpress

Transcription profiling of lung from Dahl salt sensitive (SS) rats and SS11BN consomic rats during hypoxia treatment

Examination of gene expression changes during hypoxia of the Dahl salt sensative (SS) rat and SS11BN consomic rat. SS11BN rats are derived from introgression of chromosome 11 from Brown Norway (BN) rat into the SS genetic background.