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
GSM3375491	M	M	NA	Agree	0.13	6.12	0.00	31.85	10.95	74.26	NONE	POLYA	0.933194	0.025386	0.039433	0.001987	95.37	1.63	2.92	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3375492	M	M	NA	Agree	0.00	5.90	0.00	39.39	12.16	101.27	NONE	POLYA	0.938655	0.02209	0.038244	0.001011	95.35	1.57	2.99	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3375493	M	M	NA	Agree	0.05	5.95	0.00	30.29	6.59	83.45	NONE	POLYA	0.936118	0.025562	0.036912	0.001408	93.64	1.92	4.35	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3375494	M	M	NA	Agree	0.00	7.00	0.00	32.90	9.28	105.59	NONE	POLYA	0.934441	0.025377	0.038301	0.001882	94.80	1.77	3.34	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3375495	M	M	NA	Agree	0.07	6.62	0.00	31.29	9.23	83.23	NONE	POLYA	0.923624	0.026873	0.04071	0.008793	93.49	2.38	4.03	40	LP2 (2026-09-30)	PASS	NonPolyA_perM 40 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3375496	M	M	NA	Agree	0.00	7.96	0.00	44.37	9.79	128.61	NONE	POLYA	0.935413	0.024527	0.037599	0.00246	95.01	1.85	3.04	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3375497	M	M	NA	Agree	0.02	5.60	0.00	27.17	8.82	68.95	NONE	POLYA	0.933446	0.02572	0.039529	0.001305	94.14	1.52	4.21	37	LP2 (2026-09-30)	PASS	NonPolyA_perM 37 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3375498	M	M	NA	Agree	0.00	7.74	0.00	39.71	16.50	84.21	NONE	POLYA	0.928429	0.026522	0.042867	0.002181	95.93	1.52	2.44	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does