NASCArrays Information at The BAR

Welcome to NASCArrays information at the BAR. This page hosts meta-information from the NASCArrays service (2002-2013). This information was parsed from text files available on the NASCArrays site. NASCArrays data is on iPlant server. To download experiment data from iPlant, please click on the experiment number. To download the CEL files, please click on the ftp link.

Experiment:421
Title:prr9prr7prr5 time course during late daytime
Date:2007-05-01
Description:Previous microarray analyses had revealed that myriad of genes are regulated under the circadian clock. These transcripts appear peak abundances at all phases of the subjective day and night, indicating that a complex network of transcriptional factors is used to regulate these transcripts throughout the various phases. The clock core to generate circadian rhythmic gene expression relies on the interaction of genetic feedback loops. The PSEUDO RESPONSE REGULATOR (PRR) gene family including TIMING OF CAB EXPRESSION 1 (TOC1) is involved in the mechanism. Indeed, prr9-10 prr7-11 prr5-11 (d975) triple mutant showed the arrhythmicity of circadian-associated genes expression. Prr9-10 is the SALK_007557 T-DNA insertion line, whose insertion is located the second exon of PRR9 coding sequence. Prr7-11 is the SALK_030430 T-DNA insertion line, whose insertion is located the first exon of PRR7 coding sequence. Prr5-11 is the KAZUSA_KG24599 T-DNA insertion line, whose insertion is located the fourth exon of PRR5 coding sequence. In this study, we use microarray analyses employing the d975 mutant to describe the global CCG regulatory network. The wild type (Col-0) and d975 were grown on MS plate containing 2% sucrose for 18 days under 12h light / 12h dark conditions. Then, three independent biological samples of plants were harvested at ZT8 (Zeitgeber time 8; ZT0 means the time light on), ZT10, ZT12, and ZT14. The RNA samples were prepared from the plants with use of Rneasy Plant Mini Kit (Qiagen, Valencia, CA). The quality of RNA prepared was analyzed by Bioanalyzer 2100 (Agilent Technologies). These RNA samples were processed as recommended by the Affymetrix instruction (Affymetrix GeneChip Expression Analysis Technical Manual, Affymetrix). These dataset will provide us with bases for understanding the global CCG regulatory network by PRR9, PRR7, and PRR5.
ftp Link:ftp Link

Slide Information:
Slide IDSlide NameGenetic BackgroundTissueStock CodeCel File
Sakakibara_4-10_ZT10-d975_Rep1_ATH120955shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-10_ZT10-d975_Rep1_ATH1.CEL
Sakakibara_4-11_ZT10-d975_Rep2_ATH120956shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-11_ZT10-d975_Rep2_ATH1.CEL
Sakakibara_4-12_ZT10-d975_Rep3_ATH120957shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-12_ZT10-d975_Rep3_ATH1.CEL
Sakakibara_4-13_ZT12-Wildtype_Rep1_ATH120958shoot N1092Sakakibara_4-13_ZT12-Wildtype_Rep1_ATH1.CEL
Sakakibara_4-14_ZT12-Wildtype_Rep2_ATH120959shoot N1092Sakakibara_4-14_ZT12-Wildtype_Rep2_ATH1.CEL
Sakakibara_4-15_ZT12-Wildtype_Rep3_ATH120960shoot N1092Sakakibara_4-15_ZT12-Wildtype_Rep3_ATH1.CEL
Sakakibara_4-16_ZT12-d975_Rep1_ATH120961shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-16_ZT12-d975_Rep1_ATH1.CEL
Sakakibara_4-17_ZT12-d975_Rep2_ATH120962shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-17_ZT12-d975_Rep2_ATH1.CEL
Sakakibara_4-18_ZT12-d975_Rep3_ATH120963shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-18_ZT12-d975_Rep3_ATH1.CEL
Sakakibara_4-19_ZT14-Wildtype_Rep1_ATH120964shoot N1092Sakakibara_4-19_ZT14-Wildtype_Rep1_ATH1.CEL
Sakakibara_4-1_ZT8-Wildtype_Rep1_ATH120946shoot N1092Sakakibara_4-1_ZT8-Wildtype_Rep1_ATH1.CEL
Sakakibara_4-20_ZT14-Wildtype_Rep2_ATH120965shoot N1092Sakakibara_4-20_ZT14-Wildtype_Rep2_ATH1.CEL
Sakakibara_4-21_ZT14-Wildtype_Rep3_ATH120966shoot N1092Sakakibara_4-21_ZT14-Wildtype_Rep3_ATH1.CEL
Sakakibara_4-22_ZT14-d975_Rep1_ATH120967shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-22_ZT14-d975_Rep1_ATH1.CEL
Sakakibara_4-23_ZT14-d975_Rep2_ATH120968shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-23_ZT14-d975_Rep2_ATH1.CEL
Sakakibara_4-24_ZT14-d975_Rep3_ATH120969shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-24_ZT14-d975_Rep3_ATH1.CEL
Sakakibara_4-2_ZT8-Wildtype_Rep2_ATH120947shoot N1092Sakakibara_4-2_ZT8-Wildtype_Rep2_ATH1.CEL
Sakakibara_4-3_ZT8-Wildtype_Rep3_ATH120948shoot N1092Sakakibara_4-3_ZT8-Wildtype_Rep3_ATH1.CEL
Sakakibara_4-4_ZT8-d975_Rep1_ATH120949shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-4_ZT8-d975-Rep1_ATH1.CEL
Sakakibara_4-5_ZT8-d975_Rep2_ATH120950shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-5_ZT8-d975_Rep2_ATH1.CEL
Sakakibara_4-6_ZT8-d975_Rep3_ATH120951shoot SALK_007557, SALK_030430, KAZUSA_KG24599Sakakibara_4-6_ZT8-d975_Rep3_ATH1.CEL
Sakakibara_4-7_ZT10-Wildtype_Rep1_ATH120952shoot N1092Sakakibara_4-7_ZT10-Wildtype_Rep1_ATH1.CEL
Sakakibara_4-8_ZT10-Wildtype_Rep2_ATH120953shoot N1092Sakakibara_4-8_ZT10-Wildtype_Rep2_ATH1.CEL
Sakakibara_4-9_ZT10-Wildtype_Rep3_ATH120954shoot N1092Sakakibara_4-9_ZT10-Wildtype_Rep3_ATH1.CEL