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
GSM5725198	M	Undetermined	NA	Conflict	0.00	0.04	0.00	0.27	0.08	0.35	NONE	POLYA	0.984511	0.004463	0.002422	0.008604	72.64	24.20	1.56	2	LP2 (2026-09-30)	PASS	NonPolyA_perM 2 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725199	M	Undetermined	NA	Conflict	0.00	0.09	0.00	0.60	0.19	0.76	NONE	POLYA	0.980239	0.007964	0.003472	0.008325	73.87	22.99	1.86	7	LP2 (2026-09-30)	PASS	NonPolyA_perM 7 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725200	M	Undetermined	NA	Conflict	0.00	0.08	0.00	0.61	0.17	0.69	NONE	POLYA	0.982931	0.007383	0.003117	0.006569	73.68	23.20	1.77	10	LP2 (2026-09-30)	PASS	NonPolyA_perM 10 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725201	M	Undetermined	NA	Conflict	0.01	0.09	0.00	0.99	0.32	1.18	NONE	POLYA	0.977579	0.012639	0.004478	0.005305	74.62	22.49	1.33	13	LP2 (2026-09-30)	PASS	NonPolyA_perM 13 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725202	M	Undetermined	NA	Conflict	0.00	0.08	0.00	0.36	0.17	0.39	NONE	POLYA	0.98562	0.005414	0.002742	0.006224	73.63	23.01	1.98	9	LP2 (2026-09-30)	PASS	NonPolyA_perM 9 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725203	M	Undetermined	NA	Conflict	0.01	0.17	0.00	0.97	0.29	1.89	NONE	POLYA	0.971069	0.014642	0.006135	0.008153	76.47	20.49	1.76	19	LP2 (2026-09-30)	PASS	NonPolyA_perM 19 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725204	M	Undetermined	NA	Conflict	0.00	0.07	0.00	0.31	0.16	0.57	NONE	POLYA	0.982865	0.006596	0.003311	0.007228	73.81	22.73	1.95	2	LP2 (2026-09-30)	PASS	NonPolyA_perM 2 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725205	M	Undetermined	NA	Conflict	0.00	0.09	0.00	0.64	0.23	1.06	NONE	POLYA	0.980413	0.011063	0.00406	0.004464	74.44	22.28	1.64	16	LP2 (2026-09-30)	PASS	NonPolyA_perM 16 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725206	M	Undetermined	NA	Conflict	0.00	0.03	0.00	0.11	0.10	0.25	NONE	POLYA	0.98746	0.004095	0.002467	0.005979	72.86	23.57	2.13	5	LP2 (2026-09-30)	PASS	NonPolyA_perM 5 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725207	M	M	NA	Agree	0.00	0.46	0.00	3.19	1.00	4.06	NONE	POLYA	0.953448	0.031157	0.009558	0.005837	77.84	18.41	2.72	41	LP2 (2026-09-30)	PASS	NonPolyA_perM 41 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725208	M	M	NA	Agree	0.00	0.32	0.00	1.71	0.71	3.12	NONE	POLYA	0.96768	0.021265	0.006426	0.004629	75.29	21.54	1.53	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725209	M	Undetermined	NA	Conflict	0.01	0.27	0.00	1.30	0.66	3.12	NONE	POLYA	0.964884	0.021652	0.007384	0.00608	76.54	19.73	2.47	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725210	M	M	NA	Agree	0.02	0.40	0.00	2.28	0.97	4.29	NONE	POLYA	0.956394	0.030722	0.009321	0.003562	79.12	17.75	2.07	45	LP2 (2026-09-30)	PASS	NonPolyA_perM 45 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725211	M	Undetermined	NA	Conflict	0.00	0.17	0.00	1.44	0.52	3.28	NONE	POLYA	0.965478	0.018415	0.007331	0.008776	75.85	20.35	2.82	28	LP2 (2026-09-30)	PASS	NonPolyA_perM 28 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5725212	M	M	NA	Agree	0.01	0.30	0.00	1.84	0.69	3.64	NONE	POLYA	0.966033	0.021663	0.007567	0.004738	76.82	20.02	2.03	28	LP2 (2026-09-30)	PASS	NonPolyA_perM 28 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does