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
GSM3589431	not_specified	F	NA	Conflict	27.46	0.00	0.00	0.00	0.04	0.04	NONE	POLYA	0.927191	0.029621	0.042982	0.000206	95.13	1.48	3.26	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589432	not_specified	M	NA	Conflict	0.02	2.61	0.00	16.18	7.24	46.86	NONE	POLYA	0.925937	0.029157	0.044626	0.000281	94.95	1.67	3.26	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589433	not_specified	M	NA	Conflict	0.00	2.26	0.00	10.81	6.99	42.67	NONE	POLYA	0.930299	0.030286	0.039016	0.000399	94.62	1.61	3.65	34	LP2 (2026-09-30)	PASS	NonPolyA_perM 34 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589434	not_specified	M	NA	Conflict	0.02	2.34	0.00	11.35	5.13	43.28	NONE	POLYA	0.931509	0.027669	0.04046	0.000362	94.25	1.94	3.68	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589435	not_specified	F	NA	Conflict	14.80	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.934261	0.023328	0.042022	0.000388	94.67	1.89	3.34	20	LP2 (2026-09-30)	PASS	NonPolyA_perM 20 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589436	not_specified	M	NA	Conflict	0.02	2.87	0.00	22.73	6.21	70.29	NONE	POLYA	0.938731	0.023333	0.037618	0.000318	95.12	1.75	2.99	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589437	not_specified	Undetermined	NA	Conflict	0.00	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.93507	0.026387	0.037868	0.000676	94.22	1.89	3.79	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589438	not_specified	M	NA	Conflict	0.01	1.43	0.00	9.72	3.93	32.28	NONE	POLYA	0.935287	0.025571	0.038513	0.000629	94.44	1.74	3.72	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589439	not_specified	F	NA	Conflict	17.96	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.932339	0.027676	0.039124	0.00086	94.83	1.75	3.32	43	LP2 (2026-09-30)	PASS	NonPolyA_perM 43 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589440	not_specified	F	NA	Conflict	19.03	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.927575	0.02935	0.042828	0.000248	95.26	1.53	3.10	34	LP2 (2026-09-30)	PASS	NonPolyA_perM 34 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3589441	not_specified	F	NA	Conflict	25.18	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.929267	0.028877	0.041571	0.000285	95.11	1.66	3.12	28	LP2 (2026-09-30)	PASS	NonPolyA_perM 28 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does