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:	196
Title:	Circadian gene expression under different light treatments
Date:	2005-12-02
Description:	Most eukaryotic and some prokaryotic organisms regulate their metabolic and physiological behaviour with an internal 24h 'circadian clock'. Around 6% of the Arabidopsis thaliana genome was estimated to be regulated on a transcriptional level by this clock, with various phases of peak expression throughout the daily cycle (Harmer et al., 2000). The phase and period of the internal clock is entrained by changes in light and temperature so that the clock cycles in resonance with the external environment. The temporal co-ordination provided by the clock allows organisms to anticipate and respond to the predictable environmental changes in the day/night cycle. This resonance with the external environment is believed to impart organisms with a selective advantage (Ouyang et al., 1998).Using Affymetrix micro-arrays we hope to further our knowledge of the mechanisms of the clock to help in our attempts at modelling the molecular oscillator of Arabidopsis and understanding how the clock's phase relates to fitness. Firstly we will reduce the complexity of the clock by growing seedlings under monochromatic far-red light. Under white light conditions, light signals are input to the clock via the five phytochrome and two cryptochrome photoreceptors, whereas under far-red conditions light is input solely via Phytochrome A (PHYA). Secondly, we will alter the length of the day/night cycle, away from 24 hours, by growing seedlings under different white light/dark T-cycles (T=20h and T=28h). In both sets of experiments a time course of samples will be taken over the first and/or second circadian cycle from seedlings released into constant far-red or white light, following entrainment to light/dark cycles.
ftp Link:	ftp Link

Slide Information:

Slide ID	Slide Name	Tissue	Stock Code	Cel File
Edwards_2-10_Far-Red-38hr_Rep1_ATH1	3104	Whole seedling including root	N1093	Edwards_2-9_Far-Red-34hr_Rep1_ATH1.CEL
Edwards_2-10_Far-Red-38hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-11_Far-Red-42hr_Rep1_ATH1	3105	Whole seedling including root	N1093	Edwards_2-10_Far-Red-38hr_Rep1_ATH1.CEL
Edwards_2-11_Far-Red-42hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-12_Far-Red-46hr_Rep1_ATH1	3106	Whole seedling including root	N1093	Edwards_2-11_Far-Red-42hr_Rep1_ATH1.CEL
Edwards_2-12_Far-Red-46hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-13_Far-Red-50hr_Rep1_ATH1	3107	Whole seedling including root	N1093	Edwards_2-12_Far-Red-46hr_Rep1_ATH1.CEL
Edwards_2-13_Far-Red-50hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-14_White-20hr-days-24hr_Rep1_ATH1	3108	Whole seedling including root	N1093	Edwards_2-14_White-20hr-days-24hr_Rep1_ATH1.CEL
Edwards_2-14_White-20hr-days-24hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-15_White-20hr-days-26hr_Rep1_ATH1	3109	Whole seedling including root	N1093	Edwards_2-15_White-20hr-days-26hr_Rep1_ATH1.CEL
Edwards_2-15_White-20hr-days-26hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-16_White-20hr-days-28hr_Rep1_ATH1	3110	Whole seedling including root	N1093	Edwards_2-16_White-20hr-days-28hr_Rep1_ATH1.CEL
Edwards_2-16_White-20hr-days-28hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-17_White-20hr-days-30hr_Rep1_ATH1	3111	Whole seedling including root	N1093	Edwards_2-17_White-20hr-days-30hr_Rep1_ATH1.CEL
Edwards_2-17_White-20hr-days-30hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-18_White-20hr-days-32hr_Rep1_ATH1	3112	Whole seedling including root	N1093	Edwards_2-18_White-20hr-days-32hr_Rep1_ATH1.CEL
Edwards_2-18_White-20hr-days-32hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-19_White-20hr-days-34hr_Rep1_ATH1	3113	Whole seedling including root	N1093	Edwards_2-19_White-20hr-days-34hr_Rep1_ATH1.CEL
Edwards_2-19_White-20hr-days-34hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-1_Far-Red-2hr_Rep1_ATH1	3095	Whole seedling including root	N1093	Edwards_2-4_Far-red-14hr_Rep1_ATH1.CEL
Edwards_2-1_Far-Red-2hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-20_White-20hr-days-36hr_Rep1_ATH1	3114	Whole seedling including root	N1093	Edwards_2-20_White-20hr-days-36hr_Rep1_ATH1.CEL
Edwards_2-20_White-20hr-days-36hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-21_White-20hr-days-38hr_Rep1_ATH1	3115	Whole seedling including root	N1093	Edwards_2-21_White-20hr-days-38hr_Rep1_ATH1.CEL
Edwards_2-21_White-20hr-days-38hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-22_White-20hr-days-40hr_Rep1_ATH1	3116	Whole seedling including root	N1093	Edwards_2-22_White-20hr-days-40hr_Rep1_ATH1.CEL
Edwards_2-22_White-20hr-days-40hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-23_White-20hr-days-42hr_Rep1_ATH1	3117	Whole seedling including root	N1093	Edwards_2-23_White-20hr-days-42hr_Rep1_ATH1.CEL
Edwards_2-23_White-20hr-days-42hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-24_White-20hr-days-44hr_Rep1_ATH1	3118	Whole seedling including root	N1093	Edwards_2-24_White-20hr-days-44hr_Rep1_ATH1.CEL
Edwards_2-24_White-20hr-days-44hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-25_White-20hr-days-46hr_Rep1_ATH1	3119	Whole seedling including root	N1093	Edwards_2-25_White-20hr-days-46hr_Rep1_ATH1.CEL
Edwards_2-25_White-20hr-days-46hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-26_White-20hr-days-48hr_Rep1_ATH1	3120	Whole seedling including root	N1093	Edwards_2-26_White-20hr-days-48hr_Rep1_ATH1.CEL
Edwards_2-26_White-20hr-days-48hr_Rep1_ATH1	Treatment: Seedlings were grown for 4 days in 12h:12h light dark cycles and then transferred to 10h:10h light dark (T=20) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-27_White-28hr-days-24hr_Rep1_ATH1	3121	Whole seedling including root	N1093	Edwards_2-27_White-28hr-days-24hr_Rep1_ATH1.CEL
Edwards_2-27_White-28hr-days-24hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-28_White-28hr-days-26hr_Rep1_ATH1	3122	Whole seedling including root	N1093	Edwards_2-28_White-28hr-days-26hr_Rep1_ATH1.CEL
Edwards_2-28_White-28hr-days-26hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-29_White-28hr-days-28hr_Rep1_ATH1	3123	Whole seedling including root	N1093	Edwards_2-29_White-28hr-days-28hr_Rep1_ATH1.CEL
Edwards_2-29_White-28hr-days-28hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-2_Far-Red-6hr_Rep1_ATH1	3096	Whole seedling including root	N1093	Edwards_2-13_Far-Red-50hr_Rep1_ATH1.CEL
Edwards_2-2_Far-Red-6hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-30_White-28hr-days-30hr_Rep1_ATH1	3124	Whole seedling including root	N1093	Edwards_2-30_White-28hr-days-30hr_Rep1_ATH1.CEL
Edwards_2-30_White-28hr-days-30hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-31_White-28hr-days-32hr_Rep1_ATH1	3125	Whole seedling including root	N1093	Edwards_2-31_White-28hr-days-32hr_Rep1_ATH1.CEL
Edwards_2-31_White-28hr-days-32hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-32_White-28hr-days-34hr_Rep1_ATH1	3126	Whole seedling including root	N1093	Edwards_2-32_White-28hr-days-34hr_Rep1_ATH1.CEL
Edwards_2-32_White-28hr-days-34hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-33_White-28hr-days-36hr_Rep1_ATH1	3127	Whole seedling including root	N1093	Edwards_2-33_White-28hr-days-36hr_Rep1_ATH1.CEL
Edwards_2-33_White-28hr-days-36hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-34_White-28hr-days-38hr_Rep1_ATH1	3128	Whole seedling including root	N1093	Edwards_2-34_White-28hr-days-38hr_Rep1_ATH1.CEL
Edwards_2-34_White-28hr-days-38hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-35_White-28hr-days-40hr_Rep1_ATH1	3129	Whole seedling including root	N1093	Edwards_2-35_White-28hr-days-40hr_Rep1_ATH1.CEL
Edwards_2-35_White-28hr-days-40hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-36_White-28hr-days-42hr_Rep1_ATH1	3130	Whole seedling including root	N1093	Edwards_2-36_White-28hr-days-42hr_Rep1_ATH1.CEL
Edwards_2-36_White-28hr-days-42hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-37_White-28hr-days-44hr_Rep1_ATH1	3131	Whole seedling including root	N1093	Edwards_2-37_White-28hr-days-44hr_Rep1_ATH1.CEL
Edwards_2-37_White-28hr-days-44hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-38_White-28hr-days-46hr_Rep1_ATH1	3132	Whole seedling including root	N1093	Edwards_2-38_White-28hr-days-46hr_Rep1_ATH1.CEL
Edwards_2-38_White-28hr-days-46hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-39_White-28hr-days-48hr_Rep1_ATH1	3133	Whole seedling including root	N1093	Edwards_2-39_White-28hr-days-48hr_Rep1_ATH1.CEL
Edwards_2-39_White-28hr-days-48hr_Rep1_ATH1	Treatment: Seedlings were grown for 2 days in 12h:12h light dark cycles and then transferred to 14h:14h light dark (T=28) conditions for 4 cycles. They were then transferred to constant white light and a timecourse of samples taken every 2h starting from 24h after transfer to constant light.
Edwards_2-3_Far-Red-10hr_Rep1_ATH1	3097	Whole seedling including root	N1093	Edwards_2-1_Far-red-2hr_Rep1_ATH1.CEL
Edwards_2-3_Far-Red-10hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-4_Far-Red-14hr_Rep1_ATH1	3098	Whole seedling including root	N1093	Edwards_2-2_Far-red-6hr_Rep1_ATH1.CEL
Edwards_2-4_Far-Red-14hr_Rep1_ATH1	Treatment: "Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red."
Edwards_2-4_Far_Red-14hr_Rep1_ATH1_RPT	4024	Whole seedling including root	N1093	Edwards_2-4_Far-Red-14hr_Rep1_ATH1_RPT.CEL
Edwards_2-5_Far-Red-18hr_Rep1_ATH1	3099	Whole seedling including root	N1093	Edwards_2-3_Far-red-10hr_Rep1_ATH1.CEL
Edwards_2-5_Far-Red-18hr_Rep1_ATH1	Treatment: "Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red."
Edwards_2-6_Far-Red-22hr_Rep1_ATH1	3100	Whole seedling including root	N1093	Edwards_2-5_Far-red-18hr_Rep1_ATH1.CEL
Edwards_2-6_Far-Red-22hr_Rep1_ATH1	Treatment: "Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red."
Edwards_2-7_Far-Red-26hr_Rep1_ATH1	3101	Whole seedling including root	N1093	Edwards_2-6_Far-red-22hr_Rep1_ATH1.CEL
Edwards_2-7_Far-Red-26hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-8_Far-Red-30hr_Rep1_ATH1	3102	Whole seedling including root	N1093	Edwards_2-7_Far-red-26hr_Rep1_ATH1.CEL
Edwards_2-8_Far-Red-30hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.
Edwards_2-9_Far-Red-34hr_Rep1_ATH1	3103	Whole seedling including root	N1093	Edwards_2-8_Far-Red-30hr_Rep1_ATH1.CEL
Edwards_2-9_Far-Red-34hr_Rep1_ATH1	Treatment: Seedlings were given a 1h WL pulse and maintained in constant dark for 1 day to induce germination. They were then entrained to 12h:12h far-red: dark cycles for 4 days before being transferred to constant far-red. Samples were taken at 4h intervals starting from 2h after transfer to constant far red.