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Allele-Specific Expression in Human Brain and Liver

ABSTRACT: Allele-Specific Expression in Human Brain and Liver

PROVIDER: PRJEB5297 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR420386_1.fastq.gz	Fastqsanger.gz
	ERR420386_2.fastq.gz	Fastqsanger.gz
	ERR420387_1.fastq.gz	Fastqsanger.gz
	ERR420387_2.fastq.gz	Fastqsanger.gz
	ERR420388_1.fastq.gz	Fastqsanger.gz

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Allele-Specific Expression in Human Brain and Liver

Project description:Systematic survey of gene and isoform allele-specific expression in human brain and liver tissues, and description of optimised bioinformatic and statistical methods to accurately measure allele-specific expression. DNA-seq data for the same set of samples have been deposited at the European Nucleotide Archive under project accessino PRJEB5279 ( http://www.ebi.ac.uk/ena/data/view/PRJEB5279 ).

2014-05-01 | E-MTAB-2259 | biostudies-arrayexpress

Allele-Specific Expression in Human Brain and Liver

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Project description:We describe a method for identifying peptides that result from missense changes and identify peptides among 2 human brains that would have otherwise not been detected. Next, we use this data to estimate of allele-specific protein abundance in human brain for an average per individual, and to estimate apolipoprotein E allele specific abundance in human brain across individuals. Finally, we estimate the heritability of allele-specific protein abundance.

2017-07-31 | PXD004143 | Pride

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Project description:By comparing mouse fibroblasts from two parental strains (Bl6 and Spretus) with fibroblasts from their first generation offspring (F1) we can detect allele specific expression of proteins. The Bl6 and Spretus lines are evolutionary distant and harbour many SNPs in their genomes which when synonomous we can detect on the protein level using mass spectrometry. By mixing SILAC labeled Bl6, Spretus and F1 offspring cell lines we can detect peptides shared between all three cell lines and also SNP peptides that are only expressed in the F1 cells and either Bl6 or Spretus cells. By comparing the abundance of the shared peptides and the SNP peptides we can quantify how much of a protein in the F1 cells that comes from the paternal or maternal allele. This data were then further compared to polysome profiling data. Azidohomoalanine labeling was used to enrich newly synthesized proteins from the three cell lines.

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Allele-specific Methylation of Human Placental Tissue

Project description:In this study, we screened human placental samples for allele-specific methylation and subsequently novel imprinted genes associated with these regions. We used reduced representation bisulfite sequencing to identify partially methylated CpG islands (CGIs) in the human placental genome. We were able to delineate potential candidates for allele-specific methylation based on the calculation of a concordance statistic. Amongst the 28 regions chosen for validation based on high levels of expression, two regions were shown to exhibit allele-specific expression.

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Allele-specific maps of RNA polymerase II phosphorylated at serine 5 in mouse cultured hybrid cells and mouse hybrid brain

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