P
Peifen Zhang
Researcher at Carnegie Institution for Science
Publications - 14
Citations - 4785
Peifen Zhang is an academic researcher from Carnegie Institution for Science. The author has contributed to research in topics: Genome & Arabidopsis. The author has an hindex of 11, co-authored 13 publications receiving 4224 citations. Previous affiliations of Peifen Zhang include Stanford University.
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Journal ArticleDOI
The Arabidopsis Information Resource (TAIR): gene structure and function annotation.
David Swarbreck,Christopher Wilks,Philippe Lamesch,Tanya Z. Berardini,Margarita Garcia-Hernandez,Hartmut Foerster,Donghui Li,Tom Meyer,Robert J. Muller,Larry Ploetz,Amie Radenbaugh,Shanker Singh,Vanessa Swing,Christophe Tissier,Peifen Zhang,Eva Huala +15 more
TL;DR: A combination of manual and computational methods were used to generate this release, which contains 27 029 protein-coding genes, 3889 pseudogenes or transposable elements and 1123 ncRNAs (32 041 genes in all, 37 019 gene models).
Journal ArticleDOI
The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community
Seung Y. Rhee,William D. Beavis,Tanya Z. Berardini,Guanghong Chen,David A. Dixon,Aisling Doyle,Margarita Garcia-Hernandez,Eva Huala,Gabriel C. Lander,Mary Montoya,Neil A. Miller,Lukas A. Mueller,Suparna Mundodi,Leonore Reiser,Julie Tacklind,Dan C. Weems,Yihe Wu,Iris Xu,Daniel Yoo,Jungwon Yoon,Peifen Zhang +20 more
TL;DR: New information include sequence polymorphisms including alleles, germplasms and phenotypes, Gene Ontology annotations, gene families, protein information, metabolic pathways, gene expression data from microarray experiments and seed and DNA stocks.
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MetaCyc: a multiorganism database of metabolic pathways and enzymes
Ron Caspi,Hartmut Foerster,Carol A. Fulcher,Rebecca Hopkinson,John L. Ingraham,Pallavi Kaipa,Markus Krummenacker,Suzanne M. Paley,John Pick,Seung Y. Rhee,Christophe Tissier,Peifen Zhang,Peter D. Karp +12 more
TL;DR: In the past 2 years the data content and the Pathway Tools software used to query, visualize and edit MetaCyc have been expanded significantly, and these enhancements are described in this paper.
Journal ArticleDOI
iTAK: A Program for Genome-wide Prediction and Classification of Plant Transcription Factors, Transcriptional Regulators, and Protein Kinases.
Yi Zheng,Chen Jiao,Honghe Sun,Hernan G. Rosli,Marina A. Pombo,Peifen Zhang,Michael Banf,Xinbin Dai,Gregory B. Martin,James J. Giovannoni,Patrick X. Zhao,Seung Y. Rhee,Zhangjun Fei,Zhangjun Fei +13 more
TL;DR: This is a PDF file of an unedited manuscript that has been accepted for publication and will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form.
Journal ArticleDOI
Functional Annotation of the Arabidopsis Genome Using Controlled Vocabularies
Tanya Z. Berardini,Suparna Mundodi,Leonore Reiser,Eva Huala,Margarita Garcia-Hernandez,Peifen Zhang,Lukas A. Mueller,Jungwoon Yoon,Aisling Doyle,Gabriel C. Lander,Nick Moseyko,Danny Yoo,Iris Xu,Brandon Zoeckler,Mary Montoya,Neil A. Miller,Dan C. Weems,Seung Y. Rhee +17 more
TL;DR: The process ofArabidopsis functional annotation is described using a variety of data sources and several ways in which this information can be accessed and used to infer knowledge about Arabidopsis and other plant species are illustrated.