SHEET: CYCD3_6h
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_cycD3_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 CYCD3;1 arrays)
P_call_cycD3_6h (count of P_call for duplicate EV 6 h and duplicate CYCD3;1 6 h arrays)
robust change call_cycD3_6h (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 6 h and CYCD3;1 6 h arrays )
NC_cycD3_6h (dupl) (no change (NC) call between duplicate CYCD3 6h arrays)
NC_EV (cycD3)_6h (dupl) (NC call between duplicate EV 6h arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_6h_3A_Signal
EV_6h_3B_Signal
EV_6h_3_average_Signal
EV_6h_3A_Detection (Detection call)
EV_6h_3B_Detection
EV_6h_3A_Detection p-value
EV_6h_3B_Detection p-value
CYCD3_6h_9A_Signal
CYCD3_6h_9B_Signal
CYCD3_6h_9_average_Signal
CYCD3_6h_9A_Detection
CYCD3_6h_9B_Detection
CYCD3_6h_9A_Detection p-value
CYCD3_6h_9B_Detection p-value
C34_9A_v_3A_Signal Log Ratio (pairwise comparison (PC) between 9A (CYCD3_6h_array 1) and 3A (EV_6h_array 1))
C35_9A_v_3B_Signal Log Ratio (PC between 9A and 3B (EV_6h_array 2))
C36_9B_v_3A_Signal Log Ratio (PC between 9B (CYCD3_6h_array 2) and 3A)
C37_9B_v_3B_Signal Log Ratio (PC between 9B and 3B)
average_SLR_6h_CYCD3_vs_EV (average of previous 4)
StDev_SLR_6h_CYCD3_vs_EV (SD of previous 4)
C34_9A_v_3A_Change (change calls for each of previous 4 comparisons)
C35_9A_v_3B_Change
C36_9B_v_3A_Change
C37_9B_v_3B_Change
change call_all_comparison_6h (how many times share same change call: must = 4 for “robustly regulated” genes, and show I or D change call)
C13_3B_v_3A_SignalLogRatio (SLR of EV 6h duplicates)
C46_9B_v_9A_Signal Log Ratio (SLR of CYCD3 6h duplicates)
C13_3B_v_3A_Change (change call of EV 6h duplicates)
C46_9B_v_9A_Change (change call of CYCD3 6h duplicates)
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: CYCD3_24h
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_cycD3_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 CYCD3;1 arrays)
P_call_cycD3_24h (count of P_call for duplicate EV 24 h and duplicate CYCD3;1 24 h arrays)
robust change call_cycD3_24h (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 24 h and CYCD3;1 24 h arrays )
NC_cycD3_24h (dupl) (no change (NC) call between duplicate CYCD3 24h arrays)
NC_EV (cycD3)_24h (dupl) (NC call between duplicate EV 24h arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_24h_11A_Signal (as above but 24 hr arrays)
EV_24h_11B_Signal
EV_24h_11_average_Signal
EV_24h_11A_Detection
EV_24h_11B_Detection
EV_24h_11A_Detection p-value
EV_24h_11B_Detection p-value
CYCD3_24h_17A_Signal
CYCD3_24h_17B_Signal
CYCD3_24h_17_average_Signal
CYCD3_24h_17A_Detection
CYCD3_24h_17B_Detection
CYCD3_24h_17A_Detection p-value
CYCD3_24h_17B_Detection p-value
C38_17A_v_11A_Signal Log Ratio
C39_17A_v_11B_Signal Log Ratio
C40_17B_v_11A_Signal Log Ratio
C41_17B_v_11B_Signal Log Ratio
average_SLR_24h_CYCD3_vs_EV
StDev_SLR_24h_CYCD3_vs_EV
C38_17A_v_11A_Change
C39_17A_v_11B_Change
C40_17B_v_11A_Change
C41_17B_v_11B_Change
change call_all_comparison_24h
C15_11B_v_11A_Signal Log Ratio
C47_17B_v_17A_Signal Log Ratio
C15_11B_v_11A_Change
C47_17B_v_17A_Change
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: CYCD3_24h
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_cycD3_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 CYCD3;1 arrays)
P_call_cycD3_14d (count of P_call for duplicate EV 14d h and duplicate CYCD3;1 14d arrays)
robust change call_cycD3_14d (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 14d and CYCD3;1 14d arrays )
NC_cycD3_14d (dupl) (no change (NC) call between duplicate CYCD3 14d arrays)
NC_EV (cycD3)_14d (dupl) (NC call between duplicate EV 14d arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_14d_19A_Signal (as above but 14 day arrays)
EV_14d_19B_Signal
EV_14d_19_average_Signal
EV_14d_19A_Detection
EV_14d_19B_Detection
EV_14d_19A_Detection p-value
EV_14d_19B_Detection p-value
CYCD3_14d_25A_Signal
CYCD3_14d_25B_Signal
CYCD3_14d_25_average_Signal
CYCD3_14d_25A_Detection
CYCD3_14d_25B_Detection
CYCD3_14d_25A_Detection p-value
CYCD3_14d_25B_Detection p-value
C42_25A_v_19A_Signal Log Ratio
C43_25A_v_19B_Signal Log Ratio
C44_25B_v_19A_Signal Log Ratio
C45_25B_v_19B_Signal Log Ratio
average_SLR_14d_CYCD3_vs_EV
StDev_SLR_14d_CYCD3_vs_EV
C42_25A_v_19A_Change
C43_25A_v_19B_Change
C44_25B_v_19A_Change
C45_25B_v_19B_Change
change call_all_comparison_14d
C17_19B_v_19A_Signal Log Ratio
C48_25B_v_25A_Signal Log Ratio
C17_19B_v_19A_Change
C48_25B_v_25A_Change
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: E2Fa_6h
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_E2FaDPa_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 E2Fa/DPa arrays)
P_call_E2FaDPa_6h (count of P_call for duplicate EV 6 h and duplicate E2Fa/DPa 6 h arrays)
robust change call_E2FaDPa_6h (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 6 h and E2Fa/DPa 6 h arrays )
NC_E2FaDPa_6h (dupl) (no change (NC) call between duplicate E2Fa/DPa 6h arrays)
NC_EV (E2FaDPa)_6h (dupl) (NC call between duplicate EV 6h arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_6h_3A_Signal
EV_6h_3B_Signal
EV_6h_3_average_Signal
EV_6h_3A_Detection (Detection call)
EV_6h_3B_Detection
EV_6h_3A_Detection p-value
EV_6h_3B_Detection p-value
E2FA/DPA_6h_7A_Signal
E2FA/DPA_6h_7B_Signal
E2FA/DPA_6h_7_average_Signal
E2FA/DPA_6h_7A_Detection
E2FA/DPA_6h_7B_Detection
E2FA/DPA_6h_7A_Detection p-value
E2FA/DPA_6h_7B_Detection p-value
C1_7A_v_3A_Signal Log Ratio (pairwise comparison (PC) between 7A (E2Fa/DPa_6h_array 1) and 3A (EV_6h_array 1))
C2_7A_v_3B_Signal Log Ratio (PC between 7A and 3B (EV_6h_array 2))
C3_7B_v_3A_Signal Log Ratio (PC between 7B (E2Fa/DPa_6h_array 2) and 3A)
C4_7B_v_3B_Signal Log Ratio (PC between 7B and 3B)
average_SLR_6h_E2FA_vs_EV (average of previous 4)
StDev_SLR_6h_E2FA_vs_EV (SD of previous 4)
C1_7A_v_3A_Change (change calls for each of previous 4 comparisons)
C2_7A_v_3B_Change
C3_7B_v_3A_Change
C4_7B_v_3B_Change
change call_all_comparison_6h (how many times share same change call: must = 4 for “robustly regulated” genes, and show I or D change call)
C13_3B_v_3A_SignalLogRatio (SLR of EV 6h duplicates)
C14_7B_v_7A_Signal Log Ratio (SLR of E2FA 6h duplicates)
C13_3B_v_3A_Change (change call of EV 6h duplicates)
C14_7B_v_7A_Change (change call of E2FA 6h duplicates)
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: E2Fa_24h
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_E2FaDPa_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 E2Fa/DPa arrays)
P_call_E2FaDPa_24h (count of P_call for duplicate EV 24h and duplicate E2Fa/DPa 24h arrays)
robust change call_E2FaDPa_24h (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 24 h and E2Fa/DPa 24 h arrays )
NC_E2FaDPa_24h (dupl) (no change (NC) call between duplicate E2Fa/DPa 24 h arrays)
NC_EV (E2FaDPa)_24h (dupl) (NC call between duplicate EV 24 h arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_24h_11A_Signal (as above but 24 hr arrays)
EV_24h_11B_Signal
EV_24h_11_average_Signal
EV_24h_11A_Detection
EV_24h_11B_Detection
EV_24h_11A_Detection p-value
EV_24h_11B_Detection p-value
E2FA/DPA_24h_15A_Signal
E2FA/DPA_24h_15B_Signal
E2FA/DPA_24h_15_average_Signal
E2FA/DPA_24h_15A_Detection
E2FA/DPA_24h_15B_Detection
E2FA/DPA_24h_15A_Detection p-value
E2FA/DPA_24h_15B_Detection p-value
C5_15A_v_11A_Signal Log Ratio
C6_15A_v_11B_Signal Log Ratio
C7_15B_v_11A_Signal Log Ratio
C8_15B_v_11B_Signal Log Ratio
average_SLR_24h_E2FA_vs_EV
StDev_SLR_24h_E2FA_vs_EV
C5_15A_v_11A_Change
C6_15A_v_11B_Change
C7_15B_v_11A_Change
C8_15B_v_11B_Change
change call_all_comparison_24h
C15_11B_v_11A_Signal Log Ratio
C16_15B_v_15A_Signal Log Ratio
C15_11B_v_11A_Change
C16_15B_v_15A_Change
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: E2Fa_14d
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_E2FaDPa_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 E2Fa/DPa arrays)
P_call_E2FaDPa_14d (count of P_call for duplicate EV 14d and duplicate E2Fa/DPa 14d arrays)
robust change call_E2FaDPa_14d (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 14d and E2Fa/DPa 14d arrays )
NC_E2FaDPa_14d (dupl) (no change (NC) call between duplicate E2Fa/DPa 14d arrays)
NC_EV (E2FaDPa)_14d (dupl) (NC call between duplicate EV 14d arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_14d_19A_Signal (as above but 14 day arrays)
EV_14d_19B_Signal
EV_14d_19_average_Signal
EV_14d_19A_Detection
EV_14d_19B_Detection
EV_14d_19A_Detection p-value
EV_14d_19B_Detection p-value
E2FA/DPA_14d_23A_Signal
E2FA/DPA_14d_23B_Signal
E2FA/DPA_14d_23_average_Signal
E2FA/DPA_14d_23A_Detection
E2FA/DPA_14d_23B_Detection
E2FA/DPA_14d_23A_Detection p-value
E2FA/DPA_14d_23B_Detection p-value
C9_23A_v_19A_Signal Log Ratio
C10_23A_v_19B_Signal Log Ratio
C11_23B_v_19A_Signal Log Ratio
C12_23B_v_19B_Signal Log Ratio
average_SLR_14d_E2FA_vs_EV
StDev_SLR_14d_E2FA_vs_EV
C9_23A_v_19A_Change
C10_23A_v_19B_Change
C11_23B_v_19A_Change
C12_23B_v_19B_Change
change call_all_comparison_14d
C17_19B_v_19A_Signal Log Ratio
C18_23B_v_23A_Signal Log Ratio
C17_19B_v_19A_Change
C18_23B_v_23A_Change
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: E2Fc_6h
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_E2FcDPa_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 E2Fc/DPa arrays)
P_call_E2FcDPa_6h (count of P_call for duplicate EV 6 h and duplicate E2Fc/DPa 6 h arrays)
robust change call_E2FcDPa_6h (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 6 h and E2Fc/DPa 6 h arrays )
NC_E2FcDPa_6h (dupl) (no change (NC) call between duplicate E2Fc/DPa 6h arrays)
NC_EV (E2FcDPa)_6h (dupl) (NC call between duplicate EV 6h arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_6h_3A_Signal
EV_6h_3B_Signal
EV_6h_3_average_Signal
EV_6h_3A_Detection (Detection call)
EV_6h_3B_Detection
EV_6h_3A_Detection p-value
EV_6h_3B_Detection p-value
E2FC/DPA_6h_5A_Signal
E2FC/DPA_6h_5B_Signal
E2FC/DPA_6h_5_average_Signal
E2FC/DPA_6h_5A_Detection
E2FC/DPA_6h_5B_Detection
E2FC/DPA_6h_5A_Detection p-value
E2FC/DPA_6h_5B_Detection p-value
C19_5A_v_3A_Signal Log Ratio (pairwise comparison (PC) between 5A (E2Fc/DPa_6h_array 1) and 3A (EV_6h_array 1))
C20_5A_v_3B_Signal Log Ratio (PC between 5A and 3B (EV_6h_array 2))
C21_5B_v_3A_Signal Log Ratio (PC between 5B (E2Fc/DPa_6h_array 2) and 3A)
C22_5B_v_3B_Signal Log Ratio (PC between 9B and 3B)
average_SLR_6h_E2FC_vs_EV (average of previous 4)
StDev_SLR_6h_E2FC_vs_EV (SD of previous 4)
C19_5A_v_3A_Change (change calls for each of previous 4 comparisons)
C20_5A_v_3B_Change
C21_5B_v_3A_Change
C22_5B_v_3B_Change
change call_all_comparison_6h (how many times share same change call: must = 4 for “robustly regulated” genes, and show I or D change call)
C13_3B_v_3A_SignalLogRatio (SLR of EV 6h duplicates)
C31_5B_v_5A_Signal Log Ratio (SLR of E2FC 6h duplicates)
C13_3B_v_3A_Change (change call of EV 6h duplicates)
C31_5B_v_5A_Change (change call of E2FC 6h duplicates)
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: E2Fc_24h
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_E2FcDPa_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 E2Fc/DPa arrays)
P_call_E2FcDPa_24h (count of P_call for duplicate EV 24h and duplicate E2Fc/DPa 24h arrays)
robust change call_E2FcDPa_24h (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 24 h and E2Fc/DPa 24 h arrays )
NC_E2FcDPa_24h (dupl) (no change (NC) call between duplicate E2Fc/DPa 24 h arrays)
NC_EV (E2FcDPa)_24h (dupl) (NC call between duplicate EV 24 h arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_24h_11A_Signal (as above but 24 hr arrays)
EV_24h_11B_Signal
EV_24h_11_average_Signal
EV_24h_11A_Detection
EV_24h_11B_Detection
EV_24h_11A_Detection p-value
EV_24h_11B_Detection p-value
E2FC/DPA_24h_13A_Signal
E2FC/DPA_24h_13B_Signal
E2FC/DPA_24h_13_average_Signal
E2FC/DPA_24h_13A_Detection
E2FC/DPA_24h_13B_Detection
E2FC/DPA_24h_13A_Detection p-value
E2FC/DPA_24h_13B_Detection p-value
C23_13A_v_11A_Signal Log Ratio
C24_13A_v_11B_Signal Log Ratio
C25_13B_v_11A_Signal Log Ratio
C26_173B_v_11B_Signal Log Ratio
average_SLR_24h_E2FC_vs_EV
StDev_SLR_24h_E2FC_vs_EV
C23_13A_v_11A_Change
C24_13A_v_11B_Change
C25_13B_v_11A_Change
C26_13B_v_11B_Change
change call_all_comparison_24h
C15_11B_v_11A_Signal Log Ratio
C32_13B_v_13A_Signal Log Ratio
C15_11B_v_11A_Change
C32_13B_v_13A_Change
affy25k_array_elements-2004-04-_locus (MIPS code)
description
SHEET: E2Fc_14d
probe_ID_25K (Affymetrix genechip probe set identifier)
locus (MIPS code)
P_call_E2FcDPa_all (count of detection call (P_call) for all 6 empty vector (EV) and all 6 E2Fc/DPa arrays)
P_call_E2FcDPa_14d (count of P_call for duplicate EV 14d and duplicate E2Fc/DPa 14d arrays)
robust change call_E2FcDPa_14d (4x Increased or 4x Decreased change call for pairwise comparisons between duplicate EV 14d and E2Fc/DPa 14d arrays )
NC_E2FcDPa_14d (dupl) (no change (NC) call between duplicate E2Fc/DPa 14d arrays)
NC_EV (E2FcDPa)_14d (dupl) (NC call between duplicate EV 14d arrays)
Modulated Candidate (either robust change call I or D, with only one duplicate NC; or NC between either pair of duplicates and change call between 4 pairwise comparisons with one NC or less)
EV_14d_19A_Signal (as above but 14 day arrays)
EV_14d_19B_Signal
EV_14d_19_average_Signal
EV_14d_19A_Detection
EV_14d_19B_Detection
EV_14d_19A_Detection p-value
EV_14d_19B_Detection p-value
E2FC/DPA_14d_21A_Signal
E2FC/DPA_14d_21B_Signal
E2FC/DPA_14d_21_average_Signal
E2FC/DPA_14d_21A_Detection
E2FC/DPA_14d_21B_Detection
E2FC/DPA_14d_21A_Detection p-value
E2FC/DPA_14d_21B_Detection p-value
C27_21A_v_19A_Signal Log Ratio
C28_21A_v_19B_Signal Log Ratio
C29_21B_v_19A_Signal Log Ratio
C30_21B_v_19B_Signal Log Ratio
average_SLR_14d_E2FC_vs_EV
StDev_SLR_14d_E2FC_vs_EV
C27_21A_v_19A_Change
C28_21A_v_19B_Change
C29_21B_v_19A_Change
C30_21B_v_19B_Change
change call_all_comparison_14d
C17_19B_v_19A_Signal Log Ratio
C33_21B_v_21A_Signal Log Ratio
C17_19B_v_19A_Change
C33_21B_v_21A_Change
affy25k_array_elements-2004-04-_locus (MIPS code)
description