Global Genome Expression Analysis of Rice in Response to Drought and High-salinity Stresses in Shoot, Flag Leaf, and Panicle

[1]  J. Davis Bioinformatics and Computational Biology Solutions Using R and Bioconductor , 2007 .

[2]  Pascal Condamine,et al.  Comparative Transcriptional Profiling of Two Contrasting Rice Genotypes under Salinity Stress during the Vegetative Growth Stage1[w] , 2005, Plant Physiology.

[3]  Jian Wang,et al.  A microarray analysis of the rice transcriptome and its comparison to Arabidopsis. , 2005, Genome research.

[4]  Rafael A. Irizarry,et al.  Bioinformatics and Computational Biology Solutions using R and Bioconductor , 2005 .

[5]  Ho Bang Kim,et al.  Arabidopsis cyp51 Mutant Shows Postembryonic Seedling Lethality Associated with Lack of Membrane Integrity1[w] , 2005, Plant Physiology.

[6]  Ning Sun,et al.  Organ-Specific Expression of Arabidopsis Genome during Development1[w] , 2005, Plant Physiology.

[7]  S. Kim,et al.  Arabidopsis CBF3/DREB1A and ABF3 in Transgenic Rice Increased Tolerance to Abiotic Stress without Stunting Growth1[w] , 2005, Plant Physiology.

[8]  Yuji Kamiya,et al.  Genome-wide profiling of stored mRNA in Arabidopsis thaliana seed germination: epigenetic and genetic regulation of transcription in seed. , 2005, The Plant journal : for cell and molecular biology.

[9]  K. Shinozaki,et al.  Organization of cis-acting regulatory elements in osmotic- and cold-stress-responsive promoters. , 2005, Trends in plant science.

[10]  Dawei Li,et al.  The Genomes of Oryza sativa: A History of Duplications , 2005, PLoS biology.

[11]  Gordon K. Smyth,et al.  limma: Linear Models for Microarray Data , 2005 .

[12]  A. Ramachandra Reddy,et al.  Drought-induced responses of photosynthesis and antioxidant metabolism in higher plants. , 2004, Journal of plant physiology.

[13]  Kazuo Shinozaki,et al.  Identification of cold-inducible downstream genes of the Arabidopsis DREB1A/CBF3 transcriptional factor using two microarray systems. , 2004, The Plant journal : for cell and molecular biology.

[14]  G. Crooks,et al.  WebLogo: a sequence logo generator. , 2004, Genome research.

[15]  R. Creelman,et al.  From Laboratory to Field. Using Information from Arabidopsis to Engineer Salt, Cold, and Drought Tolerance in Crops1 , 2004, Plant Physiology.

[16]  Shoshi Kikuchi,et al.  Transcriptional profiling of genes responsive to abscisic acid and gibberellin in rice: phenotyping and comparative analysis between rice and Arabidopsis. , 2004, Physiological genomics.

[17]  C. Pál,et al.  The evolutionary dynamics of eukaryotic gene order , 2004, Nature Reviews Genetics.

[18]  Gordon K Smyth,et al.  Statistical Applications in Genetics and Molecular Biology Linear Models and Empirical Bayes Methods for Assessing Differential Expression in Microarray Experiments , 2011 .

[19]  Masakazu Satou,et al.  RIKEN Arabidopsis full-length (RAFL) cDNA and its applications for expression profiling under abiotic stress conditions. , 2003, Journal of experimental botany.

[20]  P. Chatterjee,et al.  Expression of abscisic acid-responsive element-binding protein in salt-tolerant indica rice (it Oryza sativa L. cv. Pokkali) , 1998, Plant Molecular Biology.

[21]  D. Galbraith,et al.  Monitoring large-scale changes in transcript abundance in drought- and salt-stressed barley , 2004, Plant Molecular Biology.

[22]  Jian Wang,et al.  BGI-RIS: an integrated information resource and comparative analysis workbench for rice genomics , 2004, Nucleic Acids Res..

[23]  D. Shasha,et al.  A Gene Expression Map of the Arabidopsis Root , 2003, Science.

[24]  K. Shinozaki,et al.  Monitoring Expression Profiles of Rice Genes under Cold, Drought, and High-Salinity Stresses and Abscisic Acid Application Using cDNA Microarray and RNA Gel-Blot Analyses1[w] , 2003, Plant Physiology.

[25]  R. Hedrich,et al.  Regulation of the ABA‐sensitive Arabidopsis potassium channel gene GORK in response to water stress , 2003, FEBS letters.

[26]  K. Shinozaki,et al.  Regulatory network of gene expression in the drought and cold stress responses. , 2003, Current opinion in plant biology.

[27]  Cari Soderlund,et al.  In-Depth View of Structure, Activity, and Evolution of Rice Chromosome 10 , 2003, Science.

[28]  K. Akiyama,et al.  Monitoring expression profiles of Arabidopsis gene expression during rehydration process after dehydration using ca 7000 full-length cDNA microarray. , 2003, The Plant journal : for cell and molecular biology.

[29]  S. Rhee,et al.  AraCyc: A Biochemical Pathway Database for Arabidopsis1 , 2003, Plant Physiology.

[30]  A. Kamei,et al.  Molecular responses to drought, salinity and frost: common and different paths for plant protection. , 2003, Current opinion in biotechnology.

[31]  Yoav Benjamini,et al.  Identifying differentially expressed genes using false discovery rate controlling procedures , 2003, Bioinform..

[32]  K. Shinozaki,et al.  OsDREB genes in rice, Oryza sativa L., encode transcription activators that function in drought-, high-salt- and cold-responsive gene expression. , 2003, The Plant journal : for cell and molecular biology.

[33]  D. J. Widgery,et al.  From laboratory to field , 2003 .

[34]  Huazhong Shi,et al.  Overexpression of a plasma membrane Na+/H+ antiporter gene improves salt tolerance in Arabidopsis thaliana , 2003, Nature Biotechnology.

[35]  J. Kawai,et al.  Genomics approach to abscisic acid- and gibberellin-responsive genes in rice. , 2003, DNA research : an international journal for rapid publication of reports on genes and genomes.

[36]  Hur-Song Chang,et al.  Transcriptome Changes for Arabidopsis in Response to Salt, Osmotic, and Cold Stress1,212 , 2002, Plant Physiology.

[37]  T. G. Owens,et al.  Trehalose accumulation in rice plants confers high tolerance levels to different abiotic stresses , 2002, Proceedings of the National Academy of Sciences of the United States of America.

[38]  T. Gojobori,et al.  The genome sequence and structure of rice chromosome 1 , 2002, Nature.

[39]  Yujun Zhang,et al.  Sequence and analysis of rice chromosome 4 , 2002, Nature.

[40]  R. Mittler,et al.  The Combined Effect of Drought Stress and Heat Shock on Gene Expression in Tobacco1 , 2002, Plant Physiology.

[41]  K. Shinozaki,et al.  ACTCAT, a Novel cis-Acting Element for Proline- and Hypoosmolarity-Responsive Expression of the ProDH Gene Encoding Proline Dehydrogenase in Arabidopsis1 , 2002, Plant Physiology.

[42]  M. Thomashow,et al.  Transcription Factor CBF4 Is a Regulator of Drought Adaptation in Arabidopsis1 , 2002, Plant Physiology.

[43]  K. Akiyama,et al.  Monitoring the expression pattern of around 7,000 Arabidopsis genes under ABA treatments using a full-length cDNA microarray , 2002, Functional & Integrative Genomics.

[44]  K. Akiyama,et al.  Monitoring the expression profiles of 7000 Arabidopsis genes under drought, cold and high-salinity stresses using a full-length cDNA microarray. , 2002, The Plant journal : for cell and molecular biology.

[45]  Gerald M Rubin,et al.  Evidence for large domains of similarly expressed genes in the Drosophila genome , 2002, Journal of biology.

[46]  Martin J. Lercher,et al.  Clustering of housekeeping genes provides a unified model of gene order in the human genome , 2002, Nature Genetics.

[47]  Jian-Kang Zhu,et al.  Cell Signaling during Cold, Drought, and Salt Stress Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.000596. , 2002, The Plant Cell Online.

[48]  Huanming Yang,et al.  A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. indica) , 2002, Science.

[49]  Jian-Kang Zhu,et al.  Salt and drought stress signal transduction in plants. , 2002, Annual review of plant biology.

[50]  A. Oliphant,et al.  A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). , 2002, Science.

[51]  J. Zhu,et al.  Cell signaling under salt, water and cold stresses. , 2001, Current opinion in plant biology.

[52]  P Bork,et al.  Inversions and the dynamics of eukaryotic gene order. , 2001, Trends in genetics : TIG.

[53]  Hong Wang,et al.  Gene Expression Profiles during the Initial Phase of Salt Stress in Rice , 2001, Plant Cell.

[54]  F. Baas,et al.  The Human Transcriptome Map: Clustering of Highly Expressed Genes in Chromosomal Domains , 2001, Science.

[55]  Piero Carninci,et al.  Monitoring the Expression Pattern of 1300 Arabidopsis Genes under Drought and Cold Stresses by Using a Full-Length cDNA Microarray , 2001, Plant Cell.

[56]  G. Church,et al.  A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression , 2000, Nature Genetics.

[57]  C. Larsson,et al.  The role of aquaporins in cellular and whole plant water balance. , 2000, Biochimica et biophysica acta.

[58]  Y. Benjamini,et al.  On the Adaptive Control of the False Discovery Rate in Multiple Testing With Independent Statistics , 2000 .

[59]  K. Shinozaki,et al.  Molecular responses to dehydration and low temperature: differences and cross-talk between two stress signaling pathways. , 2000, Current opinion in plant biology.

[60]  K. Yamaguchi-Shinozaki,et al.  Improving plant drought, salt, and freezing tolerance by gene transfer of a single stress-inducible transcription factor. , 1999, Nature biotechnology.

[61]  Yoshihiro Ugawa,et al.  Plant cis-acting regulatory DNA elements (PLACE) database: 1999 , 1999, Nucleic Acids Res..

[62]  D. Botstein,et al.  Cluster analysis and display of genome-wide expression patterns. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[63]  T. Ho,et al.  Expression of a Late Embryogenesis Abundant Protein Gene, HVA1, from Barley Confers Tolerance to Water Deficit and Salt Stress in Transgenic Rice , 1996, Plant physiology.

[64]  Q. Shen,et al.  Functional dissection of an abscisic acid (ABA)-inducible gene reveals two independent ABA-responsive complexes each containing a G-box and a novel cis-acting element. , 1995, The Plant cell.

[65]  H. Barrs,et al.  A Re-Examination of the Relative Turgidity Technique for Estimating Water Deficits in Leaves , 1962 .