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TranscriptomicsA comprehensive and universal method for assessing the performance of differential gene expression analyses
The number of methods for pre-processing and analysis of gene expression data continues to increase, often making it difficult to select the most appropriate approach. We present a simple procedure for the comparative estimation of a variety of methods for microarray data pre-processing and analysis...
ORGANISM(S): Homo sapiens 
2010-11-09 | E-GEOD-22630 | biostudies-arrayexpress
TranscriptomicsSystems biology of gene expression of bladder papilloma cells modulated by a malignant-derived extracellular matrix
This study was undertaken to identify how gene expression of the RT4 bladder papilloma cells respond to extracellular matrics (ECM) Matrigel. Gene expression profile of RT4 cells grown on Plastic was compared with expression profiles of RT4 cells grown on Matriges over 12 hours-9 days timecourse. To...
ORGANISM(S): Homo sapiens 
2010-05-26 | E-GEOD-9291 | biostudies-arrayexpress
TranscriptomicsCD4+ T cell gene expression in B6 vs B6.Sle1c2 mice
Sle1c is a sublocus of the NZM2410-derived Sle1 major susceptibility locus. We have previously shown that Sle1c contributes to lupus pathogenesis by conferring CD4+ T cell-intrinsic hyperactivation and increased susceptibility to chronic graft-versus-host disease (cGVHD) that mapped to the centrome...
ORGANISM(S): Mus musculus 
2011-08-29 | E-GEOD-31702 | biostudies-arrayexpress
TranscriptomicsEvidence of Dynamically Dysregulated Gene Expression Pathways in Hyper-responsive B Cells from African American Lupus Patients
In this report we applied standard and original methods of analysis of gene expression microarray data to delineate differences in the molecular pathways impacted by stimulation of Epstein-Barr virus (EBV) transformed B cells derived from patients with systemic lupus erythematosus (SLE) and normal u...
ORGANISM(S): Homo sapiens 
2012-04-25 | E-GEOD-37573 | biostudies-arrayexpress
UnknownInternal standard-based analysis of microarray data2--analysis of functional associations between HVE-genes.
Not available
S-EPMC3185418 | biostudies-literature
TranscriptomicsPre-B cell leukemia homeobox protein Pbx1 is associated with lupus susceptibility in mice and humans
Sle1a.1 is part of the Sle1a lupus susceptibility locus which results in the production of activated and autoreactive CD4+ T cells as well as a reduction in the peripheral regulatory T cell (Treg) pool. Sle1a.1 CD4+ T cells showed a defective response to retinoic acid (RA) expansion of TGFβ-induce...
ORGANISM(S): Mus musculus 
2010-07-08 | E-GEOD-22313 | biostudies-arrayexpress
TranscriptomicsTranscriptome-wide Quantitative Analysis of XLPDR-derived human dermal fibroblasts with POLA1 deficiency
The goal of this study is to analyzed transcriptome changes caused by POLA1 deficiency. Our data represents the first detailed analysis of molecular basis of XLPDR syndrome. We report than POLA1 deficiency leads to over-activation of IRF and NF-kB pathways with overexpression of typical markers of a...
ORGANISM(S): Homo sapiens 
2015-12-09 | E-GEOD-72589 | biostudies-arrayexpress
TranscriptomicsInflammatory bladder response
Bladders examined at 1, 4 and 24 hours after lipopolysaccharide, substance P or ovalbumin challenge.
ORGANISM(S): Mus musculus 
2010-06-05 | E-GEOD-597 | biostudies-arrayexpress
TranscriptomicsEffect of cigarette smoke on normal human bronchial epithelial cells, and S9 toxicity
Temporal analysis of the effect of cigarette smoke on normal human bronchial epithelial cells (NHBE), and S9 toxicity.
ORGANISM(S): Homo sapiens 
2010-06-09 | E-GEOD-1276 | biostudies-arrayexpress
TranscriptomicsCell cyclin kinase inhibitor Cdkn2c regulates B cell homeostasis and function in the NZM2410-derived murine lupus susceptibility locus Sle2c1
Sle2c1 is an NZM2410-derived lupus susceptibility locus that induces an expansion of the B1a cell compartment. B1a cells have a repertoire enriched for autoreactivity, and an expansion of this B cell subset occurs in several mouse models of lupus. Here we showed that expression of Sle2c1 enhances NZ...
ORGANISM(S): Mus musculus 
2010-07-24 | E-GEOD-23114 | biostudies-arrayexpress
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