Genome Research
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The Relative Power of Family-Based and Case-Control Designs for Linkage Disequilibrium Studies of Complex Human Diseases I. DNA PoolingWe consider statistics for analyzing a variety of family-based and nonfamily-based designs for detecting linkage disequilibrium of a marker with a disease susceptibility locus. These designs include sibships with parents, sibships without parents, and use of unrelated controls. We also provide formulas for and evaluate the relative power of different study designs using these statistics. I... ... hiện toàn bộ
Genome Research - Tập 8 Số 12 - Trang 1273-1288 - 1998
Y Chromosome STR Haplotypes and the Genetic Structure of U.S. Populations of African, European, and Hispanic AncestryTo investigate geographic structure within U.S. ethnic populations, we analyzed 1705 haplotypes on the basis of 9 short tandem repeat (STR) loci on the Y-chromosome from 9–11 groups each of African-Americans, European-Americans, and Hispanics. There were no significant differences in the distribution of Y-STR haplotypes among African-American groups, whereas European-American and Hispanic ... ... hiện toàn bộ
Genome Research - Tập 13 Số 4 - Trang 624-634 - 2003
Identification of the species origin of highly processed meat products by mitochondrial DNA sequences.
Genome Research - Tập 4 Số 4 - Trang 241-243 - 1995
Alternative transcription exceeds alternative splicing in generating the transcriptome diversity of cerebellar developmentDespite our growing knowledge that many mammalian genes generate multiple transcript variants that may encode functionally distinct protein isoforms, the transcriptomes of various tissues and their developmental stages are poorly defined. Identifying the transcriptome and its regulation in a cell/tissue is the key to deciphering the cell/tissue-specific functions of a gene. We built a geno... ... hiện toàn bộ
Genome Research - Tập 21 Số 8 - Trang 1260-1272 - 2011
Derepression of Polycomb targets during pancreatic organogenesis allows insulin-producing beta-cells to adopt a neural gene activity programThe epigenome changes that underlie cellular differentiation in developing organisms are poorly understood. To gain insights into how pancreatic beta-cells are programmed, we profiled key histone methylations and transcripts in embryonic stem cells, multipotent progenitors of the nascent embryonic pancreas, purified beta-cells, and 10 differentiated tissues. We report that despite their en... ... hiện toàn bộ
Genome Research - Tập 20 Số 6 - Trang 722-732 - 2010
Cell type–specific DNA methylation at intragenic CpG islands in the immune systemHuman and mouse genomes contain a similar number of CpG islands (CGIs), which are discrete CpG-rich DNA sequences associated with transcription start sites. In both species, ∼50% of all CGIs are remote from annotated promoters but, nevertheless, often have promoter-like features. To determine the role of CGI methylation in cell differentiation, we analyzed DNA methylation at a comprehensiv... ... hiện toàn bộ
Genome Research - Tập 21 Số 7 - Trang 1074-1086 - 2011
Epigenetic switch involved in activation of pioneer factor FOXA1-dependent enhancersTranscription factors (TFs) bind specifically to discrete regions of mammalian genomes called cis -regulatory elements. Among those are enhancers, which play key roles in regulation of gene expression during development and differentiation. Despite the recognized central regulatory role exerted by chromatin in control of TF functions, much remains to be learned re... ... hiện toàn bộ
Genome Research - Tập 21 Số 4 - Trang 555-565 - 2011
Sequential ChIP-bisulfite sequencing enables direct genome-scale investigation of chromatin and DNA methylation cross-talkCross-talk between DNA methylation and histone modifications drives the establishment of composite epigenetic signatures and is traditionally studied using correlative rather than direct approaches. Here, we present sequential ChIP-bisulfite-sequencing (ChIP-BS-seq) as an approach to quantitatively assess DNA methylation patterns associated with chromatin modifications or chromatin-associa... ... hiện toàn bộ
Genome Research - Tập 22 Số 6 - Trang 1128-1138 - 2012
Sequence Evaluation of Four Pooled-Tissue Normalized Bovine cDNA Libraries and Construction of a Gene Index for CattleAn essential component of functional genomics studies is the sequence of DNA expressed in tissues of interest. To provide a resource of bovine-specific expressed sequence data and facilitate this powerful approach in cattle research, four normalized cDNA libraries were produced and arrayed for high-throughput sequencing. The libraries were made with RNA pooled from multiple tissues to incr... ... hiện toàn bộ
Genome Research - Tập 11 Số 4 - Trang 626-630 - 2001
Fusobacterium nucleatum infection is prevalent in human colorectal carcinomaAn estimated 15% or more of the cancer burden worldwide is attributable to known infectious agents. We screened colorectal carcinoma and matched normal tissue specimens using RNA-seq followed by host sequence subtraction and found marked over-representation of Fusobacterium nucleatum sequences in tumors relative to control specimens. F. nucleatum... hiện toàn bộ
Genome Research - Tập 22 Số 2 - Trang 299-306 - 2012
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