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 (2026-10-22) 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
GSM4232977	not_specified	M	NA	Conflict	0.00	1.81	0.00	16.43	8.94	57.04	NONE	POLYA	0.872448	0.058386	0.044513	0.024653	91.47	4.12	4.24	68	LP2 (2026-09-30)	PASS	NonPolyA_perM 68 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4232978	not_specified	M	NA	Conflict	0.00	2.65	0.00	16.99	8.99	60.92	NONE	POLYA	0.866559	0.059169	0.043811	0.03046	91.02	4.60	4.22	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4232979	not_specified	M	NA	Conflict	0.00	2.34	0.00	15.53	7.57	57.30	NONE	POLYA	0.874013	0.056951	0.044469	0.024567	91.72	4.15	3.95	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4232980	not_specified	M	NA	Conflict	0.00	1.64	0.00	14.19	6.58	54.87	NONE	POLYA	0.877058	0.053254	0.044064	0.025625	91.06	4.31	4.47	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4232981	not_specified	M	NA	Conflict	0.00	1.51	0.00	11.78	6.39	51.16	NONE	POLYA	0.87353	0.055103	0.043504	0.027863	90.99	4.42	4.41	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4232982	not_specified	M	NA	Conflict	0.00	1.38	0.00	11.80	4.79	51.37	NONE	POLYA	0.883247	0.051731	0.044581	0.020441	91.28	3.85	4.68	72	LP2 (2026-09-30)	PASS	NonPolyA_perM 72 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does