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GenomicsHuman variation in PolII and NF-KappaB binding (ChIP-seq study with Pol II)
We examined genome-wide variation in transcription factor binding in different individuals and a chimpanzee using chromatin immunoprecipitation followed by massively-parallel sequencing (ChIP-Seq). The binding sites of RNA Polymerase II (Pol II) as well as a key regulator of immune responses, NFkB, ...
ORGANISM(S): Pan troglodytes 
2010-03-22 | E-GEOD-19484 | biostudies-arrayexpress
GenomicsHuman variation in PolII and NF-KappaB binding (ChIP-seq study with NF-KappaB)
We examined genome-wide variation in transcription factor binding in different individuals and a chimpanzee using chromatin immunoprecipitation followed by massively-parallel sequencing (ChIP-Seq). The binding sites of RNA Polymerase II (Pol II) as well as a key regulator of immune responses, NFkB, ...
ORGANISM(S): Homo sapiens 
2010-03-22 | E-GEOD-19485 | biostudies-arrayexpress
TranscriptomicsHuman variation in PolII and NF-KappaB binding (RNA-seq study with TNF-alpha induced)
We examined genome-wide variation in transcription factor binding in different individuals and a chimpanzee using chromatin immunoprecipitation followed by massively-parallel sequencing (ChIP-Seq). The binding sites of RNA Polymerase II (Pol II) as well as a key regulator of immune responses, NFkB, ...
ORGANISM(S): Homo sapiens 
2010-03-22 | E-GEOD-19481 | biostudies-arrayexpress
TranscriptomicsRegulatory element copy number differences shape primate expression profiles.
Gene expression differences are shaped by selective pressures and contribute to phenotypic differences between species. We identified 964 copy number differences (CNDs) of conserved sequences across 3 primate species and examined their potential effects on gene expression profiles. Samples with copy...
ORGANISM(S): Pan troglodytes 
2012-08-02 | E-GEOD-38572 | biostudies-arrayexpress
TranscriptomicsHuman variation in PolII and NF-KappaB binding (RNA-seq study uninduced by TNF-alpha)
We examined genome-wide variation in transcription factor binding in different individuals and a chimpanzee using chromatin immunoprecipitation followed by massively-parallel sequencing (ChIP-Seq). The binding sites of RNA Polymerase II (Pol II) as well as a key regulator of immune responses, NFkB, ...
ORGANISM(S): Homo sapiens 
2010-03-22 | E-GEOD-19466 | biostudies-arrayexpress
GenomicsFusionSeq: a modular framework for finding gene fusions by analyzing Paired-End RNA-Sequencing data

We have developed FusionSeq to identify fusion transcripts from paired-end RNA-sequencing. FusionSeq includes filters to remove spurious candidate fusions with artifacts such as misalignments or random pairing of transcript fragments and it ranks candidates according to several statistics. It a...

phs000311.v1.p1 | EGA
GenomicsProstate Cancer Genome Sequencing Project

Prostate cancer is a prevalent cause of cancer morbidity and mortality in men. In order to characterize the full range of somatic mutations in protein-coding genes that may drive the growth of prostate cancer, we sequenced the exonic regions of genomic and tumor DNA from over 100 patients with hi...

phs000447.v1.p1 | EGA
GenomicsThe Genomic Complexity of Primary Human Prostate Cancer

Seven primary prostate cancers and their paired normal counterparts were DNA-sequenced on a massively parallel sequencing platform. This approach was taken to investigate the genomes for mutations and genomic alterations that would be undetectable by lower-resolution methods. As result, tumor...

phs000330.v1.p1 | EGA
ProteomicsAutoantibody profile timecourse of UNK
We have determined the whole genome sequence of an individual at high accuracy and performed an integrated analysis of omics profiles over a 1.5 year period that included healthy and two virally infected states. Omics profiling of transcriptomes, proteomes, cytokines, metabolomes and autoantibodyome...
ORGANISM(S): Homo sapiens 
2012-03-16 | E-GEOD-32691 | biostudies-arrayexpress
TranscriptomicsPersonal Omics Profiling Reveals Dynamic Molecular Phenotypes and Actionable Medical Risks
We have determined the whole genome sequence of an individual at high accuracy and performed an integrated analysis of omics profiles over a 1.5 year period that included healthy and two virally infected states. Omics profiling of transcriptomes, proteomes, cytokines, metabolomes and autoantibodyome...
ORGANISM(S): Homo sapiens 
2012-03-16 | E-GEOD-32874 | biostudies-arrayexpress
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