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Homo sapiens

ABSTRACT: Raw sequence reads of CEPH/UTAH female individual (HapMap: NA12878)

PROVIDER: PRJNA511646 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR8369890.fastq.gz	Fastqsanger.gz
	SRR8369891.fastq.gz	Fastqsanger.gz
	SRR8369888.fastq.gz	Fastqsanger.gz
	SRR8369889.fastq.gz	Fastqsanger.gz
	SRR8370080.fastq.gz	Fastqsanger.gz

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Project description:Whole human genome sequencing of an CEPH/UTAH female individual (HapMap: NA12878) using the Illumina HiSeq 2000 and paired 100 base reads

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Discovery of common Asian copy number variants using high-resolution array CGH

Project description:Discovery of common Asian copy number variants using a novel integrated high-resolution array CGH and massively parallel DNA sequencing. We attempted to discover common Asian copy number variants (CNVs) from the DNA of 30 Asian women (10 Korean, 10 CHB (HapMap), 10 JPT (HapMap)) using a custom-designed 24M-oligonucleotide Agilent platform (1.1M X 24 slides). The reference sample for aCGH was NA10851 (HapMap CEPH). In addition to the 30 women, 3 more individuals were analyzed as controls (AK1 (Kim, J.I. et al., 2009 Nature), NA12878 and NA19240).

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Heritability of alternative splicing in the human genome

Project description:Alternative pre-mRNA splicing increases proteomic diversity and provides a potential mechanism underlying both phenotypic diversity and susceptibility to genetic disorders in human populations. To investigate the variation in splicing among humans on a genomewide scale, we use a comprehensive exon-targeted microarray to examine alternative splicing in lymphoblasts derived from the CEPH HapMap population. We show the identification of transcripts containing annotated and novel sequence verified exon skipping, intron retention, and cryptic splice site usage that are specific between individuals. Using family-based linkage analysis, we demonstrate Mendelian inheritance and segregation of specific splice isoforms with regulatory haplotypes for three genes. Allelic association was further used to identify individual SNPs or regulatory haplotype blocks linked to the alternative splicing event, taking advantage of the high-resolution genotype information from the CEPH HapMap population. Keywords: Comparative genomic hybridiation within a 3 generation pedigree We used 14 individuals from the 3 generation CEPH/UTAH 1444 pedigree for our analysis of looking at heritability of differentially spliced exons within the family. 3 biological growths of individuals NA12739, NA12740, NA12750, and NA12751 were used and a single biological growth for the remaining 10 individuals.

2007-08-07 | E-GEOD-7952 | biostudies-arrayexpress

NA12878 sequence data from McCarthy/McVean/Lunter

Project description:Sequencing of Hapmap individual NA12878

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Gene expression levels in immortalized B cells from 131 unrelated CEPH-Utah grandparents treated under ER stress.

Project description:We used microarrays to examine gene expression levels from 131 unrelated CEPH-Utah grandparents with either DMSO or tunicamycin. We measured gene expression levels in immortalized B cells from 131 unrelated CEPH-Utah grandparents. Each individual was treated for 8 hours with either DMSO or with 4 ug/ml of tunicamycin. Gene expression was measured.

2013-03-28 | E-GEOD-36911 | biostudies-arrayexpress

Gene expression levels in immortalized B cells from 95 unrelated CEPH-Utah individuals treated with 10Gy of ionizing radiation

Project description:We used microarrays to examine gene expression levels from 95 unrelated CEPH-Utah individuals 0, 2 or 6 hours after treatment with 10Gy of ionizing radiation. We measured gene expression levels in immortalized B cells from 95 unrelated CEPH-Utah individuals. Each individual was treated with 10Gy of ionizing radiation and expression was measured 0, 2 and 6 hour after treatment.

2013-03-28 | E-GEOD-36910 | biostudies-arrayexpress

Heritability of alternative splicing in the human genome

2007-08-08 | GSE7952 | GEO

Gene expression levels in immortalized B cells from 131 unrelated CEPH-Utah grandparents treated under ER stress.

Project description:We used microarrays to examine gene expression levels from 131 unrelated CEPH-Utah grandparents with either DMSO or tunicamycin.

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Gene expression levels in immortalized B cells from members of 45 CEPH-Utah pedigrees

Project description:We used microarrays to examine gene expression levels from members of 45 CEPH-Utah pedigrees. Keywords: array-based gene expression

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Gene expression levels in immortalized B cells from 95 unrelated CEPH-Utah individuals treated with 10Gy of ionizing radiation

Project description:We used microarrays to examine gene expression levels from 95 unrelated CEPH-Utah individuals 0, 2 or 6 hours after treatment with 10Gy of ionizing radiation.

2013-03-28 | GSE36910 | GEO

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