Workflow: expression values from HPC RGD workflow (processed before workflow 2.1); computed sex, strand and library prep added by RGD attribute backfill 1.0 (2026-10-20) using the workflow 2.1 rules. Note: ComputedSex is called from sex-gene expression: R = (Xist TPM + 1) / (median TPM of Uty, Ddx3y, Kdm5d and Eif2s3y + 1); R >= 10 is called F, R <= 1 is called M, and other values, or samples where Xist and the Y-gene median are both below 1 TPM, are Undetermined. Females express Xist and males the Y-linked genes. Sry is reported but not used in the calculation. XYRatio (X:Y read coverage) is shown for reference only. Agreement compares ComputedSex with InputSex (submitted to GEO).
SampleID	InputSex	ComputedSex	XYRatio	Agreement	Xist	Uty	Sry	Ddx3y	Kdm5d	Eif2s3y	ComputedStrand	ComputedLibraryPrep	PctMRNA	PctIntronic	PctIntergenic	PctRibosomal	UniqPct	MultiPct	TooShortPct	NonPolyA_perM	LibraryPrepRule	LibraryPrepQC	LibraryPrepReason
GSM1872013	not_specified	M	NA	Conflict	0.01	4.59	0.00	32.32	13.43	37.32	NONE	POLYA	0.818308	0.103027	0.045366	0.033299	87.89	7.04	4.22	111	LP2 (2026-09-30)	PASS	NonPolyA_perM 111 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1872014	not_specified	M	NA	Conflict	0.02	6.47	0.00	44.06	15.50	56.02	NONE	POLYA	0.798325	0.10426	0.048831	0.048583	88.17	8.44	2.67	114	LP2 (2026-09-30)	PASS	NonPolyA_perM 114 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1872015	not_specified	M	NA	Conflict	15.65	8.03	0.00	45.45	16.64	41.22	NONE	POLYA	0.749683	0.158964	0.049266	0.042087	87.50	7.61	3.99	130	LP2 (2026-09-30)	PASS	NonPolyA_perM 130 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1872016	not_specified	M	NA	Conflict	0.03	3.25	0.00	26.37	12.96	31.24	NONE	POLYA	0.816788	0.092604	0.043211	0.047397	87.06	8.37	3.75	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1872017	not_specified	M	NA	Conflict	0.01	4.93	0.00	33.76	15.63	40.64	NONE	POLYA	0.79391	0.103342	0.045998	0.056751	87.21	9.14	2.95	108	LP2 (2026-09-30)	PASS	NonPolyA_perM 108 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1872018	not_specified	M	NA	Conflict	0.12	9.99	0.00	56.62	20.41	45.62	NONE	POLYA	0.746471	0.157756	0.047788	0.047986	87.05	8.04	4.05	134	LP2 (2026-09-30)	PASS	NonPolyA_perM 134 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does