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TranscriptomicsNovel roles for Klf1 in regulating the erythroid transcriptome revealed by mRNA-seq
Klf1 (formerly known as Eklf) regulates the development of erythroid cells from bi-potent progenitor cells via the transcriptional activation of a diverse set of genes. Mice lacking Klf1 die in utero prior to E15 from severe anemia due to the inadequate expression of genes controlling hemoglobin pro...
ORGANISM(S): Mus musculus 
2012-04-01 | E-GEOD-33979 | biostudies-arrayexpress
TranscriptomicsTechnical and biological variance structure in mRNA-Seq data
mRNA expression data from next generation sequencing platforms is obtained in the form of counts per gene or exon. Counts are generally assumed to follow a Poisson distribution in which the variance is equal to the mean. However, it is common in observed count data with biological variation for over...
ORGANISM(S): Homo sapiens 
2012-07-16 | E-GEOD-29022 | biostudies-arrayexpress
ProteomicsSerological IgG repertoire analysis of mRNA-1010 and Fluarix influenza vaccine recipients by Ig-Seq
Proteomic analysis of antigen-specific serum IgG repertoires from healthy adults vaccinated with either mRNA-1010 or Fluarix quadrivalent influenza vaccines. Serum IgG was characterized using Ig-Seq, an approach integrating immunoglobulin proteomics with B cell receptor sequencing to identify and qu...
ORGANISM(S): Homo sapiens (Human) 
2026-06-03 | PXD077942 | Pride
Mrna-1010 Antibody Ig-seq Influenza Fluarix Serum proteomics 
TranscriptomicsProfiling of differential allelic expression in mouse placenta from reciprocal crosses
Many questions about the regulation, functional specialization, computational prediction, and evolution of genomic imprinting would be better addressed by having an exhaustive genome-wide catalog of genes that display parent-of-origin differential expression. As a first-pass scan for novel imprinte...
ORGANISM(S): Mus musculus 
2011-06-15 | E-GEOD-29690 | biostudies-arrayexpress
GenomicsMCGILL_R4.MRNA-SEQ - samples
McGill EMC Release 4 for assay "mRNA-seq": Transcriptome profiling by high-throughput sequencing
EGAD00001001291 | EGA
TranscriptomicsTechnical Variations in Low-Input RNA-seq Methodologies
Transcriptomics data obtained from limiting amounts of mRNA is often noisy, providing primarily qualitative changes in transcript expressions. So far, technical variations arising out of the library preparation protocols have not been adequately characterized at reduced levels of mRNA. Here, we gene...
ORGANISM(S): Mus musculus 
2014-01-13 | E-GEOD-50856 | biostudies-arrayexpress
GenomicsSF3B1 association with chromatin determines splicing outcomes
Much remains unknown concerning the mechanism by which the splicing machinery pinpoints short exons within intronic sequences and how splicing factors are directed to their pre-mRNA targets. Part of the explanation probably lies in differences in chromatin organization between exons and introns. Pro...
ORGANISM(S): Homo sapiens 
2015-04-22 | E-GEOD-65644 | biostudies-arrayexpress
TranscriptomicsmRNA-seq data of embryonic chicken digits
Morphological characters are the result of developmental gene expression. Hence the identity of a character is ultimately grounded in the gene regulatory network directing development and thus whole genome gene expression data can provide evidence about character identity. Here we use transcriptomic...
ORGANISM(S): Gallus gallus 
2011-09-07 | E-GEOD-28156 | biostudies-arrayexpress
GenomicsTri-methylation of lysine 36 on H3 restricts gene expression variation during aging and impacts lifespan
Functional data indicate that specific histone modification enzymes can be key to longevity in Caenorhabditis elegans, but epigenetic mechanisms of lifespan regulation are not well understood. In this study, we profiled the genome-wide pattern of tri-methylation of lysine 36 on histone 3 (H3K36me3)...
ORGANISM(S): Caenorhabditis elegans 
2015-04-01 | E-GEOD-62720 | biostudies-arrayexpress
TranscriptomicsmRNA-Seq Whole Transcriptome Analysis of a Single Cell
Here we modified a single cell whole transcriptome amplification method to make it capable of amplifying cDNAs as long as 3kb efficiently and unbiasedly. We combined this modified single cell cDNA amplification method with Applied Biosystems next generation sequencing SOLiD™ System to set up a singl...
ORGANISM(S): Mus musculus 
2009-02-23 | E-GEOD-14605 | biostudies-arrayexpress
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