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
GSM3979054	M	M	NA	Agree	0.04	2.93	0.00	19.24	10.83	46.26	NONE	POLYA	0.864991	0.083324	0.044649	0.007036	90.43	2.06	7.36	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979055	M	M	NA	Agree	0.13	3.70	0.00	29.14	13.04	60.83	NONE	POLYA	0.859214	0.088937	0.04558	0.006269	90.39	2.03	7.43	93	LP2 (2026-09-30)	PASS	NonPolyA_perM 93 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979056	M	M	NA	Agree	0.09	3.65	0.00	23.36	12.22	51.72	NONE	POLYA	0.859222	0.09135	0.043777	0.005651	90.86	1.94	7.03	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979057	M	M	NA	Agree	0.08	3.09	0.00	22.67	10.42	51.65	NONE	POLYA	0.862997	0.082813	0.045963	0.008227	91.61	2.21	6.02	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979058	M	M	NA	Agree	0.07	3.57	0.00	22.18	11.81	52.59	NONE	POLYA	0.861063	0.086285	0.046365	0.006287	90.71	2.10	7.01	94	LP2 (2026-09-30)	PASS	NonPolyA_perM 94 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979059	M	M	NA	Agree	0.06	2.73	0.00	19.03	8.82	41.90	NONE	POLYA	0.852092	0.09678	0.042218	0.00891	91.13	2.17	6.54	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979060	M	M	NA	Agree	0.09	2.44	0.00	18.38	10.18	42.47	NONE	POLYA	0.851908	0.098768	0.041621	0.007704	90.12	2.14	7.58	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979061	M	M	NA	Agree	0.08	1.94	0.00	15.37	8.93	37.24	NONE	POLYA	0.846945	0.100338	0.039568	0.013149	90.67	2.52	6.64	86	LP2 (2026-09-30)	PASS	NonPolyA_perM 86 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979062	M	M	NA	Agree	0.07	2.52	0.00	18.73	9.19	44.58	NONE	POLYA	0.849473	0.100869	0.042868	0.00679	90.71	2.02	7.10	93	LP2 (2026-09-30)	PASS	NonPolyA_perM 93 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979063	M	M	NA	Agree	0.13	3.12	0.00	18.31	11.02	50.49	NONE	POLYA	0.838799	0.109114	0.044436	0.007651	89.68	2.17	7.95	88	LP2 (2026-09-30)	PASS	NonPolyA_perM 88 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979064	M	M	NA	Agree	0.02	3.29	0.00	21.09	12.78	47.05	NONE	POLYA	0.860779	0.091	0.043188	0.005033	92.23	1.87	5.72	92	LP2 (2026-09-30)	PASS	NonPolyA_perM 92 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979065	M	M	NA	Agree	0.12	3.63	0.00	21.99	11.17	46.81	NONE	POLYA	0.860359	0.089377	0.04198	0.008284	91.62	2.10	6.11	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979066	M	M	NA	Agree	0.10	11.54	0.00	57.36	24.35	80.30	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.78504	0.149476	0.057415	0.008069	84.39	2.33	12.99	189	LP2 (2026-09-30)	PASS	NonPolyA_perM 189 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979067	M	M	NA	Agree	0.02	12.21	0.00	57.03	22.81	74.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.759945	0.172462	0.05721	0.010383	84.30	2.55	12.84	220	LP2 (2026-09-30)	PASS	NonPolyA_perM 220 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979068	M	M	NA	Agree	0.04	12.92	0.00	53.12	20.15	73.73	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.787551	0.149305	0.058516	0.004627	84.51	2.02	13.19	149	LP2 (2026-09-30)	PASS	NonPolyA_perM 149 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979069	M	M	NA	Agree	0.00	13.55	0.00	53.68	23.43	78.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.773904	0.161793	0.057854	0.006448	84.24	2.23	13.22	211	LP2 (2026-09-30)	PASS	NonPolyA_perM 211 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979070	M	M	NA	Agree	0.02	11.21	0.00	54.31	23.65	70.73	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.755921	0.175735	0.057881	0.010463	84.43	2.53	12.73	221	LP2 (2026-09-30)	PASS	NonPolyA_perM 221 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3979071	M	M	NA	Agree	0.05	10.11	0.00	52.40	23.24	67.24	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.769258	0.167147	0.057077	0.006518	84.89	2.17	12.63	208	LP2 (2026-09-30)	PASS	NonPolyA_perM 208 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does