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:	360
Title:	Genome-wide cell cycle studies
Date:	2006-06-20
Description:	This experiment was provided by TAIR (http://arabidopsis.org).Effective analysis of gene expression during the cell cycle depends on achieving a good level of synchronisation. Until recently, analysis of cell cycle processes in plants has been hampered by the lack of synchronizable cell suspensions for Arabidopsis. We have recently developed a cell synchrony system for Arabidopsis cell suspensions MM1 and MM2d, and have developed two methods of synchronization. The first synchronizes cycling cells by blocking cells at the G1/S boundary using aphidicolin. The second uses sucrose removal and resupply to synchronize cells during re-entry into the cell cycle. Cell cycle synchrony in suspension cultured cells: cells can be reproducibly synchronized by blocking at the G1/S boundary or in early S phase using aphidicolin for 24 hr and then reversing the block by washing (Menges and Murray, 2002). On aphidicolin removal, the synchronous resumption of S phase and progression through the cell cycle occur and sequential RNA samples were taken at 2-3 hourly intervals over a 19 hour period. We have carried out a transcriptional profiling analysis with the aim to study gene expression during cell cycle progression after aphidicolin treatment of suspension-cultured cells using the near full genome ATH1 arrays (Menges et al., 2003).
ftp Link:	ftp Link

Slide Information:

Slide ID	Slide Name	Tissue	Cel File
Murray_2-10_T19-APH_Rep1_ATH1	4278	cell suspension	Murray_2-10_T19-APH_Rep1_ATH1.cel
Murray_2-10_T19-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T19 sample was taken at 19 hours after washing to release the block (exp. variable; time course).
Murray_2-1_T0-APH_Rep1_ATH1	4269	cell suspension	Murray_2-1_T0-APH_Rep1_ATH1.cel
Murray_2-1_T0-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T0 sample was taken directly after washing to release the block (exp. variable; time course).
Murray_2-2_T2-APH_Rep1_ATH1	4270	cell suspension	Murray_2-2_T2-APH_Rep1_ATH1.cel
Murray_2-2_T2-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T2 sample was taken at 2 hours after washing to release the block (exp. variable; time course).
Murray_2-3_T4-APH_Rep1_ATH1	4271	cell suspension	Murray_2-3_T4-APH_Rep1_ATH1.cel
Murray_2-3_T4-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T4 sample was taken at 4 hours after washing to release the block (exp. variable; time course).
Murray_2-4_T6-APH_Rep1_ATH1	4272	cell suspension	Murray_2-4_T6-APH_Rep1_ATH1.cel
Murray_2-4_T6-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T6 sample was taken at 6 hours after washing to release the block (exp. variable; time course).
Murray_2-5_T8-APH_Rep1_ATH1	4273	cell suspension	Murray_2-5_T8-APH_Rep1_ATH1.cel
Murray_2-5_T8-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T8 sample was taken at 8 hours after washing to release the block (exp. variable; time course).
Murray_2-6_T10-APH_Rep1_ATH1	4274	cell suspension	Murray_2-6_T10-APH_Rep1_ATH1.cel
Murray_2-6_T10-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T10 sample was taken at 10 hours after washing to release the block (exp. variable; time course).
Murray_2-7_T12-APH_Rep1_ATH1	4275	cell suspension	Murray_2-7_T12-APH_Rep1_ATH1.cel
Murray_2-7_T12-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T12 sample was taken at 12 hours after washing to release the block (exp. variable; time course).
Murray_2-8_T14-APH_Rep1_ATH1	4276	cell suspension	Murray_2-8_T14-APH_Rep1_ATH1.cel
Murray_2-8_T14-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T14 sample was taken at 14 hours after washing to release the block (exp. variable; time course).
Murray_2-9_T16-APH_Rep1_ATH1	4277	cell suspension	Murray_2-9_T16-APH_Rep1_ATH1.cel
Murray_2-9_T16-APH_Rep1_ATH1	Treatment: 20 ml of an early stationary phase MM2d cell suspension (7 days after previous subculture) was transferred into 100 ml fresh MSS-medium (MS-salt, 3% sucrose, 0.5mg/l NAA, 0.05mg/l kinetin) and incubated in the presence of 4.16 ug/ml aphidicolin (not exp.variable) for 24 hours under continuous darkness by rotating at 130 rpm at a temperature of 27C. Cells were gently washed with 1 l MSS-medium through a nylon net (47um mesh size), followed by centrifugation (387 x g for 1 min, no brake applied) to remove the drug. Cells were resuspended in a total volume of 120 ml fresh MSS-medium, incubated as above and samples were taken 2-3 hourly for analysis. The T16 sample was taken at 16 hours after washing to release the block (exp. variable; time course).