Empirical Analysis of Transcriptional Activity in the Arabidopsis Genome

Science

Volumn 302, Issue 5646, 2003, Pages 842-846

  Yamada, Kayoko ^a   Lim, Jun ^b   Dale, Joseph H ^a   Chen, Huaming ^b,c   Shinn, Paul ^b,c   Palm, Curtis J ^d   Southwick, Audrey M ^d   Wu, Hank C ^a   Kim, Christopher ^b,c   Nguyen, Michelle ^d   Pham, Paul ^a   Cheuk, Rosa ^b,c   Karlin Newmann, George ^d   Liu, Shirley X ^a   Lam, Bao ^d   Sakano, Hitomi ^a   Wu, Troy ^d   Yu, Guixia ^a   Miranda, Molly ^d   Quach, Hong L ^a   Tripp, Matthew ^d   Chang, Charlie H ^a   Lee, Jeong M ^a   Toriumi, Mitsue ^a   Chan, Marie M H ^a   Tang, Carolyn C ^a   Onodera, Courtney S ^a   Deng, Justine M ^a   Akiyama, Kenji ^e   Ansari, Yasser ^b   Arakawa, Takahiro ^f   Banh, Jenny ^a   Banno, Fumika ^a   Bowser, Leah ^d   Brooks, Shelise ^c   Carninci, Piero ^e,f   Chao, Qimin ^c   Choy, Nathan ^b   Enju, Akiko ^e   Goldsmith, Andrew D ^a   Gurjal, Mani ^d   Hansen, Nancy F ^d   Hayashizaki, Yoshihide ^e,f   Johnson Hopson, Chanda ^c   Hsuan, Vickie W ^a   Iida, Kei ^e   Karnes, Meagan ^b   Khan, Shehnaz ^c   Koesema, Eric ^b   Ishida, Junko ^e   Jiang, Paul X ^a   Jones, Ted ^d   Kawai, Jun ^e,f   Kamiya, Asako ^e   Meyers, Cristina ^b   Nakajima, Maiko ^e   Narusaka, Mari ^e   Seki, Motoaki ^e,g   Sakurai, Tetsuya ^e   Satou, Masakazu ^e   Tamse, Racquel ^d   Vaysberg, Maria ^a   Wallender, Erika K ^a   Wong, Cecilia ^a   Yamamura, Yuki ^a   Yuan, Shiaulou ^a   Shinozaki, Kazuo ^e,g   Davis, Ronald W ^d   Theologis, Athanasios ^a   Ecker, Joseph R ^b,c   more..

^a PLANT GENE EXPRESSION CENTER   (United States)

^b SALK INSTITUTE FOR BIOLOGICAL STUDIES   (United States)

^c UNIVERSITY OF PENNSYLVANIA   (United States)

^d STANFORD UNIVERSITY SCHOOL OF MEDICINE   (United States)

^e RIKEN YOKOHAMA INSTITUTE   (Japan)

^f Japan Science and Technology Agency   (Japan)

^g RIKEN TSUKUBA INSTITUTE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ARRAYS; DNA; PLANTS (BOTANY); RNA;

GENOME SEQUENCE;

GENES;

COMPLEMENTARY DNA; OLIGONUCLEOTIDE; PLANT DNA; PLANT RNA; PROTEOME;

ARABIDOPSIS; ARTICLE; CENTROMERE; CONTROLLED STUDY; DNA HYBRIDIZATION; DNA MICROARRAY; FUNCTIONAL ASSESSMENT; GENE SEQUENCE; GENE STRUCTURE; GENETIC ANALYSIS; GENETIC TRANSCRIPTION; GENOME; NONHUMAN; NUCLEIC ACID PROBE; PLANT GENETICS; PLANT TISSUE; PRIORITY JOURNAL;

ARABIDOPSIS; CHROMOSOME MAPPING; CHROMOSOMES, PLANT; CLONING, MOLECULAR; COMPUTATIONAL BIOLOGY; DNA, COMPLEMENTARY; DNA, INTERGENIC; EXPRESSED SEQUENCE TAGS; GENE EXPRESSION PROFILING; GENES, PLANT; GENOME, PLANT; GENOMICS; NUCLEIC ACID HYBRIDIZATION; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; OPEN READING FRAMES; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, MESSENGER; RNA, PLANT; TRANSCRIPTION, GENETIC;

ARABIDOPSIS;

EID: 0242300620     PISSN: 00368075     EISSN: None     Source Type: Journal    
DOI: 10.1126/science.1088305     Document Type: Article

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47. We thank M. Johnston for critical reading of the manuscript K. Mayer for gene functional category information, and T. Gingeras for support of this project. We also thank S. Elledge for providing us with the pUNI50 vector and P. Surko, J. Borevitz, and T. Mockler for useful discussions. Supported by the NSF Plant Genom Research Program under awards DBI-9975718, DBI-0196098 (to J.R.E), DBI-9872752 (to R.W.D.), and USDA CRIS no. 5335-21430-005-00D (to A.T.). This study has also been supported by Research Grant for Genome Research from RIKEN (to K.S.) and by Research Grant for the RIKEN Genome Exploration Research Project from the Ministry of Education, Culture, Sports, Science and Technology of the Japanese Government (to Y.H.). Affymetrix genome tiling array expression data have been deposited in the Gene Expression Omnibus (GEO) database (www.ncbl.nlm.nih.gov/geo/). Accession numbers are as follows: pilot tiling arrays, GSM8999 through GSM9010 and GSM9196 through GSM9207; whole genome arrays, GSM8942 through GSM8977 and GSM9208 through GSM9219, GEO accessions for pilot and whole genome array analysis files: GSE601, GSE636-639. GenBank accession numbers can be found on table S6.