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
GSM5641641	not_specified	M	NA	Conflict	0.01	5.18	0.00	25.29	9.49	49.21	NONE	POLYA	0.90878	0.060309	0.027238	0.003673	95.22	2.33	2.31	85	LP2 (2026-09-30)	PASS	NonPolyA_perM 85 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641642	not_specified	M	NA	Conflict	0.02	5.51	0.00	28.94	9.14	42.48	NONE	POLYA	0.867199	0.084731	0.032154	0.015916	92.11	4.02	3.68	110	LP2 (2026-09-30)	PASS	NonPolyA_perM 110 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641643	not_specified	F	NA	Conflict	156.54	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.912529	0.054441	0.027067	0.005963	94.73	2.64	2.49	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641644	not_specified	M	NA	Conflict	0.01	6.88	0.00	31.58	8.56	50.53	NONE	POLYA	0.911228	0.051	0.027297	0.010475	94.64	2.84	2.39	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641645	not_specified	M	NA	Conflict	0.02	6.76	0.00	28.47	10.50	49.93	NONE	POLYA	0.90403	0.058384	0.02663	0.010956	94.89	2.85	2.12	71	LP2 (2026-09-30)	PASS	NonPolyA_perM 71 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641646	not_specified	F	NA	Conflict	168.13	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.905664	0.055354	0.027923	0.011059	94.57	3.01	2.29	83	LP2 (2026-09-30)	PASS	NonPolyA_perM 83 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641647	not_specified	F	NA	Conflict	132.14	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.910895	0.050818	0.026027	0.01226	94.38	3.11	2.40	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641648	not_specified	F	NA	Conflict	139.75	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.916879	0.05165	0.02664	0.004831	95.15	2.41	2.31	68	LP2 (2026-09-30)	PASS	NonPolyA_perM 68 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641649	not_specified	F	NA	Conflict	113.72	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.928324	0.038719	0.026021	0.006935	95.22	2.53	2.14	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641650	not_specified	F	NA	Conflict	137.47	0.00	0.00	0.00	0.09	0.00	NONE	POLYA	0.908801	0.051978	0.028471	0.01075	94.41	3.06	2.42	79	LP2 (2026-09-30)	PASS	NonPolyA_perM 79 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641651	not_specified	F	NA	Conflict	180.15	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.909929	0.052535	0.028535	0.009001	94.73	2.67	2.47	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5641652	not_specified	M	NA	Conflict	0.02	5.54	0.00	23.42	8.80	39.00	NONE	POLYA	0.902366	0.06604	0.027002	0.004592	95.28	2.44	2.15	85	LP2 (2026-09-30)	PASS	NonPolyA_perM 85 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does