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GenomicsComparative methylome analysis of benign and malignant peripheral nerve sheath tumors
Aberrant DNA methylation (DNAm) was first linked to cancer over 25 years ago. Since then, many studies have associated hypermethylation of tumour suppressor genes and hypomethylation of oncogenes to the tumourigenic process. However, most of these studies have been limited to the analysis of promote...
ORGANISM(S): Homo sapiens 
2011-01-01 | E-GEOD-21714 | biostudies-arrayexpress
TranscriptomicsRNA-seq of rat dorsal root ganglia after ligation to investigate central nervous system transcriptomics in chronic pain using agnostic splice site discovery methods
The study pursued dual goals: To advance mRNA-seq bioinformatics towards unbiased transcriptome capture and to demonstrate its potential for discovery in neuroscience by applying the approach to an in vivo model of neurological disease. We found that 12.4% of known genes were induced and 7% were sup...
ORGANISM(S): Rattus norvegicus 
2010-05-01 | E-GEOD-20895 | biostudies-arrayexpress
TranscriptomicsDevelopmental timecourse of C. elegans small RNAs with 5p monophosphates
These datasets profile the expression of small RNAs with 5p monophosphates and 3p hydroxyls (including miRNAs, 21U-RNAs) across C. elegans development and in dauer, glp-4 mutant, and mixed-stage wt worms. These datasets were prepared in the David P. Bartel laboratory using T4 RNA ligase Rnl2(1-249)....
ORGANISM(S): Caenorhabditis elegans 
2008-06-15 | E-GEOD-11734 | biostudies-arrayexpress
TranscriptomicsAlternative Isoform Regulation in Human Tissue Transcriptomes
Through alternative processing of pre-mRNAs, individual mammalian genes often produce multiple mRNA and protein isoforms that may have related, distinct or even opposing functions. Here we report an in-depth analysis of 15 diverse human tissue and cell line transcriptomes based on deep sequencing of...
ORGANISM(S): Homo sapiens 
2008-09-30 | E-GEOD-12946 | biostudies-arrayexpress
TranscriptomicsRNA-Seq of human individual tissues and mixture of 16 tissues (Illumina Body Map)
Transcription profiling by high throughput sequencing of individual and mixture of 16 human tissues RNA. This dataset is part of the TransQST collection.
ORGANISM(S): Homo sapiens 
2011-05-05 | E-MTAB-513 | biostudies-arrayexpress
TranscriptomicsMutant analysis of C. elegans small RNAs with 5p monophosphates
These datasets profile the expression of small RNAs with 5p monophosphates and 3p hydroxyls (including miRNAs, 21U-RNAs) in young adult worms from the wt, prg-1 mutant, and fog-2 mutant backgrounds. These datasets were prepared in the Craig C. Mello laboratory using T4 RNA ligase 1. Keywords: miRNA...
ORGANISM(S): Caenorhabditis elegans 
2008-06-15 | E-GEOD-11735 | biostudies-arrayexpress
GenomicsGenome, epigenome and RNA sequences of monozygotic twins discordant for multiple sclerosis

Monozygotic (MZ) twins have been widely employed for dissection of the relative contributions of genetics and environment in disease. In multiple sclerosis (MS), an autoimmune demyelinating disease that commonly causes neurodegeneration and disability in young adults, disease discordance in M...

phs000239.v2.p1 | EGA
TranscriptomicsIllumina gene expression beadchips of human ES cell lines
Publication title: Distinct DNA methylation patterns characterize differentiated human embryonic stem cells and developing human fetal liver To investigate the role of DNA methylation during human development, we developed Methyl-seq, a method that assays DNA methylation at more than 90,000 regions...
ORGANISM(S): Homo sapiens 
2011-05-05 | E-GEOD-29070 | biostudies-arrayexpress
TranscriptomicsMammalian microRNAs: Experimental evaluation of novel and previously annotated genes
MicroRNAs (miRNAs) are small regulatory RNAs that derive from distinctive hairpin transcripts. To learn more about the miRNAs of mammals, we sequenced 60 million small RNAs from mouse brain, ovary, testes, embryonic stem cells, three embryonic stages, and whole newborns. Analysis of these sequences ...
ORGANISM(S): Homo sapiens 
2010-04-26 | E-GEOD-20384 | biostudies-arrayexpress
TranscriptomicsMutant analysis of C. elegans small RNAs, 5p-end-independent
These datasets profile the expression of small RNAs with 3p hydroxyls (including endo-siRNAs, miRNAs, and 21U-RNAs) in young adult worms from the wt and prg-1 mutant backgrounds. They were prepared using an approach that captures small RNAs independent of the covalent status of their 5p termini, as...
ORGANISM(S): Caenorhabditis elegans 
2008-06-15 | E-GEOD-11736 | biostudies-arrayexpress
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