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
GSM2598207	M	M	NA	Agree	0.00	5.14	0.00	37.51	8.76	110.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.960121	0.018502	0.019609	0.001769	92.36	1.66	5.85	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2598208	M	M	NA	Agree	0.00	6.44	0.00	40.02	9.06	125.32	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.961153	0.017501	0.020455	0.000891	92.58	1.55	5.76	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2598209	M	M	NA	Agree	0.00	3.08	0.00	25.87	6.62	90.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.960895	0.017643	0.020196	0.001266	85.56	1.64	12.67	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2598210	M	M	NA	Agree	0.00	4.20	0.00	32.77	7.70	99.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.962686	0.016602	0.019757	0.000956	91.55	1.55	6.79	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does