The goal right now, Yu says, is to help
with gene annotation efforts and allow search engines to better pinpoint whether or not current research links a condition to a gene.
Not exact matches
The RNA - guided endonuclease Cas9 is a versatile genome - editing tool
with a broad range of applications from therapeutics to functional
annotation of
genes.
The tags can then be compared to the human genome to find out if they match up
with genes discovered by
annotation.
In terms of functional groups rather than individual
genes, of the 51.4 % Bt
genes with COG
annotations, those related to carbohydrate transport and metabolism comprised 10 % of the input library.
When they compared the results to the Mouse Genomic Informatics Knockout database they found 123
genes that corresponded
with functional
annotation of abnormal extraembryonic tissue morphology, 121 associated
with embryonic lethality, and 14
with abnormal embryo implantation.
Phenotype data from 449 mutant alleles were acquired, representing 320 unique
genes, of which half had no previous functional
annotation and data from over 27,000 mice were captured, finding that 83 % of the mutant lines are phenodeviant,
with 65 % demonstrating pleiotropy.
In addition, we have generated a high - quality RNA - Seq
gene annotation pipeline that is now routinely used in Ensembl
annotation and is proving particularly useful for species
with very little protein or cDNA evidence.
BioGPS interfaces
with the CouchDB instance via the REST - based web services for
gene annotation queries and retrieval.
In terms of
annotation, 966 new
genes were found in the PcyM assembly compared to PcyB,
with most of these
genes being found in the subtelomeres (see Table 2).
Through systematic
annotation of the resulting movies, we developed a phenotypic profiling system, which shows high correlation
with cellular processes and biochemical pathways, thus enabling us to predict new functions for previously uncharacterized
genes.
We considered
genes with at least 5 reads mapping in exons and from all biotypes in the
annotation.
This indicates that a comprehensive and experimentally supported
annotation effort of the human genome simultaneously highlights regions
with striking differences in
gene organization to other species and may indicate evolutionary events specific to the human lineage demanding further functional analyses.
Draft genome
annotation was transferred from P. vivax P01 using RATT21 (version 1), and supplemented
with the output of the Augustus22
gene finder, trained on P. vivax P01 as described in23.
Conclusions We present an accurate and comprehensive
annotation of the oil palm genome, focusing on analysis of important categories of
genes (GC3 - rich and intronless), as well as those associated
with important functions, such as FA biosynthesis and disease resistance.
With the substantial increase in predicted gene number and gene quality obtained with the OGSv2 gene set, it is clear that an updated annotation of infection responsive genes would be valua
With the substantial increase in predicted
gene number and
gene quality obtained
with the OGSv2 gene set, it is clear that an updated annotation of infection responsive genes would be valua
with the OGSv2
gene set, it is clear that an updated
annotation of infection responsive
genes would be valuable.
First, we add all antimicrobial peptides identified by a previous computational screen [35], filtered to remove cases where
gene models were removed during a subsequent
annotation or NCBI
gene models could not be associated
with OGS 2.0
gene models.
This application uses calculated break points to determine fusion
genes based on the latest
annotation for genomic sequence information, and where relevant the structural variation (SV) events are annotated
with predicted RNA and protein sequences.
While it is not straightforward to directly compare the immune repertoire reported here
with previous reports that have used different underlying
gene models [15], [34], we do note that our inference about the number and identity of signaling components is consistent
with previous
annotations [15], [34], while our inference about recognition and effectors tends to reflect greater, albeit still relatively minor, differences.
Click «Phenotype Details» to view all phenotype
annotations and evidence for this locus as well as phenotypes it shares
with other
genes.
Establish collaborative «networks»
with specialist phenotyping consortia or laboratories, providing standardized secondary phenotyping that enriches the primary dataset, and end - user, project specific tertiary level phenotyping that adds value to the mammalian
gene functional
annotation and fosters hypothesis driven research.
In 1997, when few genome sequences were available, Hieter helped create XREFdb, a public database that linked the functional
annotations of
genes studied in model organisms
with the phenotypic
annotations on the human and mouse genetic maps.
A software tool that functionally annotates genetic variants
with gene, region, and filter - based
annotations.
An extensive analysis of the whole - genome, including
annotation of predicted
genes and assignment of functional categories, analysis of chromosomal architecture and the distribution of transposable elements, and comparisons
with other genomes, is presented
with the publication of the sequences of chromosomes 1, 3, and 5.
Due to the more comprehensive GO term
annotation of the mouse genome, we attributed GO terms to rabbit
genes based on one - to - one orthology relationships
with mouse
genes.
We integrate functional genomic datasets
with up - to - date
gene and genome annotations, Gene Ontology and pathway annotations, gene orthologs, gene interactions, and a comprehensive set of miRNA - target predictions for human, mouse, zebrafish, and nemat
gene and genome
annotations,
Gene Ontology and pathway annotations, gene orthologs, gene interactions, and a comprehensive set of miRNA - target predictions for human, mouse, zebrafish, and nemat
Gene Ontology and pathway
annotations,
gene orthologs, gene interactions, and a comprehensive set of miRNA - target predictions for human, mouse, zebrafish, and nemat
gene orthologs,
gene interactions, and a comprehensive set of miRNA - target predictions for human, mouse, zebrafish, and nemat
gene interactions, and a comprehensive set of miRNA - target predictions for human, mouse, zebrafish, and nematode.
The
annotation pipeline was analogous to the resistance
gene pipeline
with an amino acid similarity threshold of 95 %.
Specifically, we have generated clusters of transcripts that behave the same way under the entire spectrum of the sixty - seven experimental conditions; we have assembled
genes in groups according to their time of expression during successive days of ES cell differentiation; we have included expression profiles of specific
gene classes such as transcription regulatory factors and Expressed Sequence Tags; transcripts have been arranged in «Expression Waves» and juxtaposed to
genes with opposite or complementary expression patterns; we have designed search engines to display the expression profile of any transcript during ES cell differentiation;
gene expression data have been organized in animated graphs of KEGG signaling and metabolic pathways; and finally, we have incorporated advanced functional
annotations for individual
genes or
gene clusters of interest and links to microarray and genomic resources.
To investigate the underlying mechanisms, we undertook (1) bioinformatic, functional genomic
annotation and human osteoblast expression studies; (2)
gene - function prediction; (3) skeletal phenotyping of 120 knockout mice
with deletions of
genes adjacent to lead independent SNPs; and (4) analysis of
gene expression in mouse osteoblasts, osteocytes and osteoclasts.
The functional
annotations of all the clusters
with ≥ 10 transcripts, which were obtained using the on GO classification categories of the g: Profiler tool for all the
genes in each cluster, are shown in Table 2 (for downregulated
genes during ES cell differentiation) and Table 3 (for upregulated
genes).
Group of Designs for Ballet and Various Stage Productions, 1940s - 50s, including two mixed - media examples
with annotations, attributed to Miles White, one designed for the dancer
Gene Carrons; six More...