A
Agnes P. Chan
Researcher at J. Craig Venter Institute
Publications - 70
Citations - 9466
Agnes P. Chan is an academic researcher from J. Craig Venter Institute. The author has contributed to research in topics: Genome & Gene. The author has an hindex of 32, co-authored 65 publications receiving 7647 citations. Previous affiliations of Agnes P. Chan include University of Texas MD Anderson Cancer Center & University of Cambridge.
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Predicting the Functional Effect of Amino Acid Substitutions and Indels
TL;DR: A new algorithm, PROVEAN (Protein Variation Effect Analyzer), is developed, which provides a generalized approach to predict the functional effects of protein sequence variations including single or multiple amino acid substitutions, and in-frame insertions and deletions.
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PROVEAN web server: a tool to predict the functional effect of amino acid substitutions and indels
Yongwook Choi,Agnes P. Chan +1 more
TL;DR: A web server to predict the functional effect of single or multiple amino acid substitutions, insertions and deletions using the prediction tool PROVEAN, which provides rapid analysis of protein variants from any organisms, and also supports high-throughput analysis for human and mouse variants at both the genomic and protein levels.
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Araport11: a complete reannotation of the Arabidopsis thaliana reference genome
Chia Yi Cheng,Vivek Krishnakumar,Agnes P. Chan,Françoise Thibaud-Nissen,Seth Schobel,Christopher D. Town +5 more
TL;DR: This updated Arabidopsis genome annotation with a substantially increased resolution of gene models will not only further the understanding of the biological processes of this plant model but also of other species.
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Draft genome sequence of the oilseed species Ricinus communis
Agnes P. Chan,Jonathan Crabtree,Qi Zhao,Hernan Lorenzi,Joshua Orvis,Daniela Puiu,Admasu Melake-Berhan,Kristine M Jones,Julia C. Redman,Grace Q. Chen,Edgar B. Cahoon,Melaku Gedil,Mario Stanke,Brian J. Haas,Jennifer R. Wortman,Claire M. Fraser-Liggett,Jacques Ravel,Pablo D. Rabinowicz,Pablo D. Rabinowicz +18 more
TL;DR: Comparative genomics analysis suggests the presence of an ancient hexaploidization event that is conserved across the dicotyledonous lineage and the number of members of the ricin gene family is larger than previously thought.
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An improved genome release (version Mt4.0) for the model legume Medicago truncatula
Haibao Tang,Vivek Krishnakumar,Shelby L. Bidwell,Benjamin D. Rosen,Agnes P. Chan,Shiguo Zhou,Laurent Gentzbittel,Kevin L. Childs,Mark Yandell,Heidrun Gundlach,Klaus F. X. Mayer,David C. Schwartz,Christopher D. Town +12 more
TL;DR: This work describes a further improved and refined version of the M. truncatula genome (Mt4.0) based on de novo whole genome shotgun assembly of a majority of Illumina and 454 reads using ALLPATHS-LG, and re-annotates the genome through the gene prediction pipeline, which integrates EST, RNA-seq, protein and gene prediction evidences.