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A Caenorhabditis elegans Model for Integrating the Functions of Neuropsychiatric Risk Genes Identifies Components Required for Normal Dendritic Morphology
Publication Type: Academic Journal
Source(s): G3: Genes, Genomes, Genetics, Vol 10, Iss 5, Pp 1617-1628 (2020)
Abstract: Analysis of patient-derived DNA samples has identified hundreds of variants that are likely involved in neuropsychiatric diseases such as autism spectrum disorder (ASD) and schizophrenia (SCZ). While these studies couple behavioral phenotypes to indivi...
The human origin recognition complex is essential for pre-RC assembly, mitosis, and maintenance of nuclear structure
Publication Type: Academic Journal
Source(s): eLife, Vol 10 (2021)
Abstract: The origin recognition complex (ORC) cooperates with CDC6, MCM2-7, and CDT1 to form pre-RC complexes at origins of DNA replication. Here, using tiling-sgRNA CRISPR screens, we report that each subunit of ORC and CDC6 is essential in human cells. Using ...
Hybrid assembly with long and short reads improves discovery of gene family expansions
Publication Type: Academic Journal
Source(s): BMC Genomics, Vol 18, Iss 1, Pp 1-12 (2017)
Abstract: Abstract Background Long-read and short-read sequencing technologies offer competing advantages for eukaryotic genome sequencing projects. Combinations of both may be appropriate for surveys of within-species genomic variation. Methods We developed a h...
The pangenome of an agronomically important crop plant Brassica oleracea
Publication Type: Academic Journal
Source(s): Nature Communications, Vol 7, Iss 1, Pp 1-8 (2016)
Abstract: Brassica oleracea is a single species that includes diverse crops such as cabbage, broccoli and Brussels sprouts. Here, the authors identify genes not captured in existing B. oleraceareference genomes by the assembly of a pangenome and show variations ...
Chd5 Requires PHD-Mediated Histone 3 Binding for Tumor Suppression
Publication Type: Academic Journal
Source(s): Cell Reports, Vol 3, Iss 1, Pp 92-102 (2013)
Abstract: Chromodomain Helicase DNA binding protein 5 (CHD5) is a tumor suppressor mapping to 1p36, a genomic region that is frequently deleted in human cancer. Although CHD5 belongs to the CHD family of chromatin-remodeling proteins, whether its tumor-suppressi...
A hybrid likelihood model for sequence-based disease association studies.
Publication Type: Academic Journal
Source(s): PLoS Genetics, Vol 9, Iss 1, p e1003224 (2013)
Abstract: In the past few years, case-control studies of common diseases have shifted their focus from single genes to whole exomes. New sequencing technologies now routinely detect hundreds of thousands of sequence variants in a single study, many of which are ...
Detailed analysis of a contiguous 22-Mb region of the maize genome.
Publication Type: Academic Journal
Source(s): PLoS Genetics, Vol 5, Iss 11, p e1000728 (2009)
Abstract: Most of our understanding of plant genome structure and evolution has come from the careful annotation of small (e.g., 100 kb) sequenced genomic regions or from automated annotation of complete genome sequences. Here, we sequenced and carefully annotat...
A functional phylogenomic view of the seed plants.
Publication Type: Academic Journal
Source(s): PLoS Genetics, Vol 7, Iss 12, p e1002411 (2011)
Abstract: A novel result of the current research is the development and implementation of a unique functional phylogenomic approach that explores the genomic origins of seed plant diversification. We first use 22,833 sets of orthologs from the nuclear genomes of...
Epigenetic natural variation in Arabidopsis thaliana.
Publication Type: Academic Journal
Source(s): PLoS Biology, Vol 5, Iss 7, p e174 (2007)
Abstract: Cytosine methylation of repetitive sequences is widespread in plant genomes, occurring in both symmetric (CpG and CpNpG) as well as asymmetric sequence contexts. We used the methylation-dependent restriction enzyme McrBC to profile methylated DNA using...
Sorghum genome sequencing by methylation filtration.
Publication Type: Academic Journal
Source(s): PLoS Biology, Vol 3, Iss 1, p e13 (2005)
Abstract: Sorghum bicolor is a close relative of maize and is a staple crop in Africa and much of the developing world because of its superior tolerance of arid growth conditions. We have generated sequence from the hypomethylated portion of the sorghum genome b...