Set 03: Notch

Phenotypes:

absentNotch: ATM^-/- tumour cells with undetectable ICN (UD-ICN) - 6 Samples
truncNotch: ATM^-/- tumour cells with truncated ICN (T-ICN) - 10 Samples
wtNotch: ATM^-/- tumour cells with non-trucated ICN (NT-ICN) - 4 Samples
normalThy: ATM^-/- non-leukemic thymocytes - 4 Samples

Platform: Illumina MouseRef_8V1

GSEA-preRanked reports for "moderated t-Test":

	MSigDB.c2	MSigDB.c3	MSigDB.c5	Pathways
absentNotch vs. truncNotch	Report	Report	Report	Report
absentNotch vs. wtNotch	Report	Report	Report	Report
truncNotch vs. absentNotch	Report	Report	Report	Report
truncNotch vs. wtNotch	Report	Report	Report	Report
wtNotch vs. absentNotch	Report	Report	Report	Report
wtNotch vs. truncNotch	Report	Report	Report	Report
absentNotch vs. normalThy	Report	Report	Report	Report
truncNotch vs. normalThy	Report	Report	Report	Report
wtNotch vs. normalThy	Report	Report	Report	Report

Note:
The ranked gene lists were extracted from the files "2008_GuidosLeukemiaData/03_T-ALL_Notch_GEP/Analyzed data/t-tests/top24613_*_4gp.csv" with the R-Code posted on:
http://baderlab.org/CancerStemCellProject/CodeRepository#extract_moderated_tStatisctic_to_RNK_Set03.R

GSEA reports for "GSEA t-Test":

	MSigDB.c2	MSigDB.c3	MSigDB.c5	Pathways
absentNotch vs. truncNotch	Report	Report	Report	Report
absentNotch vs. wtNotch	Report	Report	Report	Report
truncNotch vs. absentNotch	Report	Report	Report	Report
truncNotch vs. wtNotch	Report	Report	Report	Report
wtNotch vs. absentNotch	Report	Report	Report	Report
wtNotch vs. truncNotch	Report	Report	Report	Report
absentNotch vs. normalThy	Report	Report	Report	Report
truncNotch vs. normalThy	Report	Report	Report	Report
wtNotch vs. normalThy	Report	Report	Report	Report

GSEA reports for "Log2_Ratio_of_Classes":

	MSigDB.c2	MSigDB.c3	MSigDB.c5	Pathways
absentNotch vs. truncNotch	Report	Report	Report	Report
absentNotch vs. wtNotch	Report	Report	Report	Report
truncNotch vs. absentNotch	n/a	Report	n/a	Report
truncNotch vs. wtNotch	Report	Report	Report	Report
wtNotch vs. absentNotch	Report	Report	Report	Report
wtNotch vs. truncNotch	Report	Report	Report	Report
absentNotch vs. normalThy	Report	Report	Report	Report
truncNotch vs. normalThy	Report	Report	Report	Report
wtNotch vs. normalThy	Report	Report	Report	Report