Ensembl 2020
By Andrew D. Yates, P. Achuthan, Wasiu A. Akanni, James E. Allen, Jorge Alvarez-Jarreta, M. Amode, Irina M. Armean, A. G. Azov, Ruth Bennett, Jyothish Bhai and 65 more. 2019
1,385 citations recorded by the source corpus.
Abstract The Ensembl (https://www.ensembl.org) is a system for generating and distributing genome annotation such as genes, variation, regulation and comparative genomics across the vertebrate subphylum and key model organisms. The Ensembl annotation pipeline is capable of integrating experimental and reference data from multiple providers into a single integrated resource. Here, we present 94 newly annotated and re-annotated genomes, bringing the total number of genomes offered by Ensembl to 227. This represents the single largest expansion of the resource since its inception. We also detail our continued efforts to improve human annotation, developments in our epigenome analysis and display, a new tool for imputing causal genes from genome-wide association studies and visualisation of variation within a 3D protein model. Finally, we present information on our new website. Both software and data are made available without restriction via our website, online tools platform and programmatic interfaces (available under an Apache 2.0 license) and data updates made available four times a year.
Subfields: Molecular Biology
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In Molecular Biology
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Citations in the corpus
- GENCODE 2021 (2020, methodology): “The Ensembl / GENCODE geneset is a merge of the manual gene annotation created by the Ensembl-HAVANA team (methods and validation described in 6–8) and the automated annotation produced by the Ensembl Geneb-uild team (9,10).”
- A systematic benchmark of Nanopore long read RNA sequencing for transcript level analysis in human cell lines (2021, background): “(1) Deep transcriptome profiling of human cell lines using Nanopore RNA-Sequencing To provide a comprehensive benchmark data set for Nanopore RNA-Seq data, we have deeply profiled one common cell line for colon cancer (HCT116), liver cancer (HepG2), lung cancer (A549), breast cancer (MCF7), and Leuk”