Brandon Walts
A5033853003- Genomics and Phylogenetic Studies
- Genetic Mapping and Diversity in Plants and Animals
- Bioinformatics and Genomic Networks
- Genetic Associations and Epidemiology
- Plant Disease Resistance and Genetics
- Molecular Biology Techniques and Applications
- Wheat and Barley Genetics and Pathology
- RNA modifications and cancer
- Plant nutrient uptake and metabolism
- Adipose Tissue and Metabolism
- Gene expression and cancer classification
- Plant Pathogens and Resistance
- Chromosomal and Genetic Variations
- RNA and protein synthesis mechanisms
- Genetic diversity and population structure
- Biomedical Text Mining and Ontologies
- Plant Virus Research Studies
- Microbial Metabolic Engineering and Bioproduction
- Plant and Fungal Species Descriptions
- Cancer-related molecular mechanisms research
- Genetic and phenotypic traits in livestock
- Vibrio bacteria research studies
- Acoustic Wave Resonator Technologies
- Odor and Emission Control Technologies
- Music Technology and Sound Studies
European Bioinformatics Institute
2013-2022
Wellcome Trust
2013-2015
University of Florida
2010-2013
Cold Spring Harbor Laboratory
2013
Cornell University
2013
Oregon State University
2013
Pennington Biomedical Research Center
2004-2006
Louisiana State University System
2006
Louisiana State University
2004
The Ensembl project has been aggregating, processing, integrating and redistributing genomic datasets since the initial releases of draft human genome, with aim accelerating genomics research through rapid open distribution public data. Large amounts raw data are thus transformed into knowledge, which is made available via a multitude channels, in particular our browser (http://www.ensembl.org). Over time, we have expanded multiple directions. First, resources describe fields genomics, gene...
Ensembl (https://www.ensembl.org) is unique in its flexible infrastructure for access to genomic data and annotation. It has been designed efficiently deliver annotation at scale all eukaryotic life, it also provides deep comprehensive key species. Genomes representing a greater diversity of species are increasingly being sequenced. In response, we have focussed our recent efforts on expediting the new assemblies. Here, report release greatest annual number newly annotated genomes history...
Abstract The Ensembl project (https://www.ensembl.org) annotates genomes and disseminates genomic data for vertebrate species. We create detailed comprehensive annotation of gene structures, regulatory elements variants, enable comparative genomics by inferring the evolutionary history genes genomes. Our integrated are made available in a variety ways, including genome browsers, search interfaces, specialist tools such as Variant Effect Predictor, download files programmatic interfaces....
The Ensembl (https://www.ensembl.org) is a system for generating and distributing genome annotation such as genes, variation, regulation comparative genomics across the vertebrate subphylum key model organisms. pipeline capable of integrating experimental reference data from multiple providers into single integrated resource. Here, we present 94 newly annotated re-annotated genomes, bringing total number genomes offered by to 227. This represents largest expansion resource since its...
The Ensembl project (https://www.ensembl.org) makes key genomic data sets available to the entire scientific community without restrictions. seeks be a fundamental resource driving progress by creating, maintaining and updating reference genome annotation comparative genomics resources. This year we describe our new expanded gene, variant capabilities, which led 50% increase in number of vertebrate genomes support. We have also doubled human variants added regulatory regions for many mouse...
Ensembl (https://www.ensembl.org) has produced high-quality genomic resources for vertebrates and model organisms more than twenty years. During that time, our resources, services tools have continually evolved in line with both the publicly available genome data downstream research applications utilise platform. In recent years we witnessed a dramatic shift landscape. There been large increase number of reference genomes through global biodiversity initiatives. parallel, there major...
Ensembl (www.ensembl.org) is a database and genome browser for enabling research on vertebrate genomes. We import, analyse, curate integrate diverse collection of large-scale reference data to create more comprehensive view biology than would be possible from any individual dataset. Our extensive resources include evidence-based gene regulatory region annotation, variation trees. An accompanying suite tools, infrastructure programmatic access methods ensure uniform analysis distribution all...
Ensembl Genomes (http://www.ensemblgenomes.org) is an integrating resource for genome-scale data from non-vertebrate species, complementing the resources vertebrate genomics developed in context of project (http://www.ensembl.org). Together, two provide a consistent set programmatic and interactive interfaces to rich range including reference sequence, gene models, transcriptional data, genetic variation comparative analysis. This paper provides update previous publications about resource,...
Abstract This paper presents the eleventh update of human obesity gene map, which incorporates published results up to end October 2004. Evidence from single‐gene mutation cases, Mendelian disorders exhibiting as a clinical feature, transgenic and knockout murine models relevant obesity, quantitative trait loci (QTLs) animal cross‐breeding experiments, association studies with candidate genes, linkages genome scans is reviewed. As 2004, 173 cases due mutations in 10 different genes have been...
Ensembl Genomes (http://www.ensemblgenomes.org) is an integrating resource for genome-scale data from non-vertebrate species. The project exploits and extends technologies genome annotation, analysis dissemination, developed in the context of vertebrate-focused project, provides a complementary set resources species through consistent programmatic interactive interfaces. These provide access to including reference sequence, gene models, transcriptional data, polymorphisms comparative...
Gramene (http://www.gramene.org) is a curated online resource for comparative functional genomics in crops and model plant species, currently hosting 27 fully 10 partially sequenced reference genomes its build number 38. Its strength derives from the application of phylogenetic framework genome comparison use ontologies to integrate structural annotation data. Whole-genome alignments complemented by gene family trees help infer syntenic orthologous relationships. Genetic variation data,...
Gramene (http://www.gramene.org) is an online resource for comparative functional genomics in crops and model plant species. Its two main frameworks are genomes (collaboration with Ensembl Plants) pathways (The Plant Reactome archival BioCyc databases). Since our last NAR update, the database website adopted a new Drupal management platform. The section features 39 fully assembled reference that integrated using ontology-based annotation analyses, accessed through both visual programmatic...
Genome sequencing with next-generation sequence (NGS) technologies can now be applied to organisms pivotal addressing fundamental biological questions, but genomes previously considered intractable or too expensive undertake. However, for species large and complex genomes, extensive genetic physical map resources have, until now, been required direct the effort assembly. As these are unavailable most species, assembling high-quality genome sequences from NGS data remains challenging. We...
Recent developments in DNA sequencing have enabled the large and complex genomes of many crop species to be determined for first time, even those previously intractable due their polyploid nature. Indeed, over course last 2 years, genome sequences several commercially important cereals, notably barley bread wheat, become available, as well related wild species. While still incomplete, comparison with other, more completely assembled suggests that coverage genic regions is likely high....
Vibrio vulnificus is the leading cause of reported death from consumption seafood in United States. Despite several decades research on molecular pathogenesis, much remains to be learned about mechanisms virulence this opportunistic bacterial pathogen. The two complete and annotated genomic DNA sequences V. belong strains clade 2, which predominant among clinical strains. Clade 2 generally possess higher potential animal models disease compared with 1, predominates environmental SOLiD...
Abstract Objective: To explore a quantitative trait locus (QTL) on human chromosome 1q affecting BMI, adiposity, and fat‐free mass phenotypes in the Quebec Family Study cohort. Research Methods Procedures: Non‐parametric sibpair variance component linkage analyses family‐based association studies were performed with dense set of 1q43 microsatellites single‐nucleotide polymorphism markers 885 adult individuals. Results: Linkage was observed between marker D1S184 BMI ( p = 0.0004) body fat or...
Abstract Multilevel analysis of transcription is facilitated by a new array design that includes modules for assessment differential expression, isoform usage, and allelic imbalance in Drosophila. The ∼2.5 million feature chip incorporates large number controls, it contains 18,769 3′ expression probe sets 61,919 exon with sequences from Drosophila melanogaster 60,118 SNP focused on simulans. An experiment D. simulans identified genes differentially expressed between males females (34% the...
Recent developments in DNA sequencing have enabled the large and complex genomes of many crop species to be determined for first time, even those previously intractable due their polyploid nature. Indeed, over course last two years, genome sequences several commercially important cereals, notably barley bread wheat, become available, as well related wild species. While still incomplete, comparison other, more completely assembled suggests that coverage genic regions is likely high. Ensembl...