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TranscriptomicsGene expression analysis of TNF-alpha stimulated THP-1 cells
The series was designed to obtain gene expression patterns of TNF-alpha stimulated THP-1 cells. Keywords: TNF-alpha stimulation This series represents a group of 15 samples in two groups: 7 samples derived from not stimulated THP-1 cells, 8 from THP-1 cells stimulated with TNF-alpha in a final conce...
ORGANISM(S): Homo sapiens 
2010-06-25 | E-GEOD-10106 | biostudies-arrayexpress
TranscriptomicsGene expression analysis of TNF-alpha stimulated CaCo-2 cells
The series was designed to obtain gene expression patterns of TNF-alpha stimulated CaCo-2 cells. Keywords: TNF-alpha stimulation This series represents a group of 18 samples in 2 groups: 10 samples derived from not stimulated CaCo-2 cells, 8 samples from CaCo-2 cells stimulated with TNF-alpha in fin...
ORGANISM(S): Homo sapiens 
2010-06-25 | E-GEOD-10108 | biostudies-arrayexpress
TranscriptomicsGenome-wide search for novel human uORFs and N-terminal protein extensions using ribosomal footprinting
So far, the annotation of translation initiation sites (TISs) has been based mostly upon bioinformatics rather than experimental evidence. We adapted ribosomal footprinting to puromycin-treated cells to generate a transcriptome-wide map of TISs in a human monocytic cell line. A neural network was tr...
ORGANISM(S): Homo sapiens 
2012-08-08 | E-GEOD-39561 | biostudies-arrayexpress
TranscriptomicsNOD2 and desease associated variant NOD2-L1007fsinsC dependent genomewide transcriptional regulation in stable Flp-In HEK cells
NOD2 is an intracellular receptor for the bacterial cell wall component muramyl dipeptide (MDP) and variants of NOD2 are associated with chronic inflammatory diseases of barrier organs e.g. Crohn disease, asthma and atopic eczema. It is known that activation of NOD2 induces a variety of inflammatory...
ORGANISM(S): Homo sapiens 
2013-01-01 | E-GEOD-22611 | biostudies-arrayexpress
ProteomicsProteome profiles of primary pancreatic ductal adenocarcinomas undergoing adjuvant chemoradiation link ALDH1A1 to early local recurrence and chemoradiation resistance
Pancreatic ductal adenocarcinoma (PDAC) has a poor prognosis with very frequent post-surgical local recurrence. The combination of adjuvant chemotherapy with radiotherapy is under consideration to achieve a prolonged disease-free survival (DFS). To date, few studies have determined protein profiles ...
ORGANISM(S): Homo sapiens (Human) 
2018-09-11 | PXD009254 | Pride
Maoa Chemoradiation Aldh1a1 
TranscriptomicsMicroRNA miR-223 constrains lethal inflammation during Mycobacterium tuberculosis infection
The molecular mechanisms that control innate cell recruitment during chronic infection and inflammation, such as tuberculosis (TB), are incompletely understood. During TB, myeloid cells infiltrate the lung and sustain local inflammation. We identified microRNA (miR)-223 as one of the most abundant n...
ORGANISM(S): Homo sapiens 
2014-04-21 | E-GEOD-39163 | biostudies-arrayexpress
TranscriptomicsAtlas Rat cDNA Expression Array - Zipf's Normalization
Five microarrays from a larger dataset used to demonstrate a normalization technique base on Zipf's law. The original data set was generated by using Atlas Rat cDNA microarrays (Clontech, 588 genes) probed with rat brain tissue, from control (cerebellum n=10, olive n=10) and harmaline treated (cereb...
ORGANISM(S): Rattus norvegicus 
2010-06-06 | E-GEOD-1509 | biostudies-arrayexpress
TranscriptomicsGenetic analysis reveals a longevity associated protein modulating endothelial function and angiogenesis
Transcriptome analysis in HEK293T transfected with plasmid carrying different isoforms of BPIFB4 gene. This gene was previously associated with exceptional longevity in a GWAS study performed on three different populations. Results indicate an up-regulation of stress response genes and proteostasis ...
ORGANISM(S): Homo sapiens 
2015-06-12 | E-GEOD-63912 | biostudies-arrayexpress
GenomicsNINDS-Genome-Wide Genotyping in Parkinson's Disease: First Stage Analysis and Public Release of Data

Epidemiological studies have estimated a cumulative prevalence of PD of greater than 1 per thousand. When prevalence is limited to senior populations, this proportion increases nearly 10-fold. The estimated genetic risk ratio for PD is approximately 1.7 (70% increased risk for PD if a sibling...

phs000089.v3.p2 | EGA
TranscriptomicsUltra short and progressive 4sU-tagging reveals key characteristics of RNA processing at nucleotide resolution
RNA synthesis and decay rates determine the steady-state levels of cellular RNAs. Metabolic tagging of newly transcribed RNA by 4-thiouridine (4sU) can reveal the relative contributions of RNA synthesis and decay rates. The kinetics of RNA processing, however, so far remained unresolved. Here, we sh...
ORGANISM(S): Homo sapiens 
2012-04-25 | E-GEOD-31653 | biostudies-arrayexpress
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