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 (2026-10-21) 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
GSM3664833	M	M	NA	Agree	0.09	6.15	0.00	30.61	11.32	47.46	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.92744	0.026641	0.031874	0.014045	94.84	2.26	2.80	40	LP2 (2026-09-30)	PASS	NonPolyA_perM 40 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3664834	M	M	NA	Agree	0.08	4.22	0.00	39.55	8.73	34.78	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.935687	0.02617	0.027235	0.010908	95.19	1.80	2.92	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3664835	M	M	NA	Agree	0.00	5.37	0.00	38.66	11.60	34.57	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.92292	0.033709	0.029586	0.013786	94.95	2.02	2.95	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3664836	M	M	NA	Agree	0.14	5.11	0.00	19.58	8.21	22.15	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.885229	0.045821	0.029802	0.039148	92.25	4.78	2.83	41	LP2 (2026-09-30)	PASS	NonPolyA_perM 41 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3664837	M	M	NA	Agree	0.06	6.65	0.00	25.11	6.93	35.44	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.928004	0.028009	0.027419	0.016568	94.47	2.45	2.98	17	LP2 (2026-09-30)	PASS	NonPolyA_perM 17 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3664838	M	M	NA	Agree	0.13	3.78	0.00	37.67	8.89	42.86	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.929382	0.032668	0.028343	0.009608	94.71	1.76	3.43	35	LP2 (2026-09-30)	PASS	NonPolyA_perM 35 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does