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
GSM4561729	M	M	NA	Agree	0.13	5.81	0.00	48.29	17.15	64.17	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.87276	0.078161	0.047781	0.001297	54.59	1.20	44.02	54	LP2 (2026-09-30)	PASS	NonPolyA_perM 54 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561730	M	M	NA	Agree	0.18	6.50	0.00	42.76	16.57	58.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893009	0.059885	0.044747	0.002359	53.04	1.28	45.51	49	LP2 (2026-09-30)	PASS	NonPolyA_perM 49 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561731	M	M	NA	Agree	0.26	6.01	0.00	46.79	16.12	67.77	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.87585	0.074835	0.046559	0.002757	56.34	1.37	42.09	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561732	M	M	NA	Agree	0.39	6.11	0.00	50.31	17.58	67.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.873022	0.077652	0.047485	0.001841	55.27	1.28	43.26	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561733	M	M	NA	Agree	0.00	6.37	0.00	38.26	22.09	68.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886716	0.066053	0.045738	0.001492	55.02	1.15	43.67	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561734	M	M	NA	Agree	0.00	7.28	0.00	45.47	24.41	69.53	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.877991	0.074364	0.045724	0.001921	56.79	1.17	41.88	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561736	M	M	NA	Agree	0.00	6.81	0.00	43.23	20.94	76.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.873751	0.076756	0.046029	0.003464	50.73	1.26	47.84	57	LP2 (2026-09-30)	PASS	NonPolyA_perM 57 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561737	M	M	NA	Agree	0.00	7.34	0.00	41.29	22.92	63.95	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.868888	0.080994	0.047156	0.002962	51.74	1.17	46.91	54	LP2 (2026-09-30)	PASS	NonPolyA_perM 54 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561738	M	M	NA	Agree	0.00	6.48	0.00	42.02	19.39	67.49	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.903744	0.0496	0.044891	0.001764	51.76	1.11	46.98	41	LP2 (2026-09-30)	PASS	NonPolyA_perM 41 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561739	M	M	NA	Agree	0.09	6.22	0.00	44.43	16.21	74.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.874434	0.076303	0.046526	0.002737	52.06	1.27	46.49	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561740	M	M	NA	Agree	0.00	7.16	0.00	43.81	18.42	70.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893804	0.058265	0.046274	0.001658	51.46	1.11	47.29	52	LP2 (2026-09-30)	PASS	NonPolyA_perM 52 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561741	M	M	NA	Agree	0.00	8.70	0.00	42.80	21.71	77.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886332	0.06601	0.046446	0.001212	52.87	1.10	45.87	54	LP2 (2026-09-30)	PASS	NonPolyA_perM 54 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561742	M	M	NA	Agree	0.00	7.93	0.00	43.26	19.42	66.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.890538	0.058697	0.046994	0.003771	54.32	1.32	44.21	45	LP2 (2026-09-30)	PASS	NonPolyA_perM 45 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561743	M	M	NA	Agree	0.36	7.91	0.00	58.03	19.56	80.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.859639	0.091391	0.047668	0.001302	54.84	1.21	43.75	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561744	M	M	NA	Agree	0.09	5.94	0.00	46.45	18.79	66.91	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.863353	0.086129	0.047576	0.002943	53.92	1.27	44.62	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561745	M	M	NA	Agree	0.21	7.75	0.00	51.98	16.76	75.23	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.849364	0.100636	0.049099	0.0009	52.20	1.16	46.43	64	LP2 (2026-09-30)	PASS	NonPolyA_perM 64 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4561746	M	M	NA	Agree	0.21	6.70	0.00	46.87	19.40	67.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.861727	0.088247	0.048618	0.001409	58.87	1.32	39.62	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does