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). For 5 samples processed before workflow 2.1, ComputedSex is the earlier curated call, kept after review where it differed from the rule above.
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
GSM7703449	M	M	NA	Agree	0.12	2.76	0.00	19.41	8.77	54.79	NONE	POLYA	0.934006	0.028075	0.033436	0.004483	87.50	1.88	10.47	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703450	M	M	NA	Agree	0.39	1.39	0.00	7.04	3.72	49.03	NONE	POLYA	0.931891	0.020982	0.037332	0.009795	83.47	3.01	13.33	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703451	M	M	NA	Agree	0.51	2.16	0.00	15.34	7.36	44.41	NONE	POLYA	0.935986	0.029201	0.030438	0.004375	84.88	1.89	13.07	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703452	M	M	NA	Agree	0.06	2.25	0.00	13.65	6.96	48.98	NONE	POLYA	0.921705	0.035259	0.032154	0.010882	87.50	2.51	9.84	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703453	M	M	NA	Agree	0.10	1.84	0.00	14.02	6.95	52.12	NONE	POLYA	0.933968	0.026037	0.030472	0.009523	87.13	2.35	10.39	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703454	M	M	NA	Agree	0.07	2.65	0.00	11.66	7.48	52.79	NONE	POLYA	0.941068	0.023004	0.032604	0.003325	86.95	1.82	11.09	18	LP2 (2026-09-30)	PASS	NonPolyA_perM 18 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703455	M	F	NA	Conflict	14.41	0.02	0.00	0.05	0.00	0.25	NONE	POLYA	0.918065	0.033522	0.032608	0.015805	86.58	2.99	10.31	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703456	M	M	NA	Agree	0.02	2.01	0.00	10.00	5.67	61.45	NONE	POLYA	0.92437	0.023188	0.031374	0.021068	87.22	3.40	9.25	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703457	M	M	NA	Agree	0.13	1.90	0.00	13.68	7.33	41.38	NONE	POLYA	0.931917	0.027066	0.032447	0.008569	83.82	2.33	13.70	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703458	M	M	NA	Agree	0.06	1.96	0.00	14.86	8.37	55.33	NONE	POLYA	0.929734	0.025203	0.03321	0.011853	85.87	2.63	11.36	18	LP2 (2026-09-30)	PASS	NonPolyA_perM 18 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703459	M	F	NA	Conflict	7.07	0.02	0.00	0.14	0.02	0.22	NONE	POLYA	0.93332	0.023874	0.03242	0.010387	83.08	2.29	14.50	19	LP2 (2026-09-30)	PASS	NonPolyA_perM 19 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703460	M	F	NA	Conflict	13.63	0.02	0.00	0.10	0.03	0.19	NONE	POLYA	0.9287	0.029773	0.032534	0.008993	83.45	2.27	14.15	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703461	F	F	NA	Agree	9.61	0.02	0.00	0.15	0.04	0.24	NONE	POLYA	0.931899	0.026803	0.031443	0.009856	84.64	2.41	12.81	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703462	F	F	NA	Agree	9.83	0.00	0.00	0.03	0.07	0.44	NONE	POLYA	0.938652	0.026244	0.032263	0.002841	85.96	1.71	12.18	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703463	F	F	NA	Agree	9.52	0.00	0.00	0.09	0.03	0.17	NONE	POLYA	0.927679	0.027918	0.031713	0.01269	83.44	2.62	13.80	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703464	F	F	NA	Agree	11.96	0.00	0.00	0.13	0.05	0.13	NONE	POLYA	0.933763	0.029288	0.033368	0.003581	83.90	1.75	14.20	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703465	F	F	NA	Agree	20.23	0.04	0.00	0.05	0.03	0.58	NONE	POLYA	0.926783	0.034763	0.032902	0.005552	82.27	1.74	15.85	45	LP2 (2026-09-30)	PASS	NonPolyA_perM 45 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703466	F	F	NA	Agree	10.93	0.00	0.00	0.09	0.04	0.26	NONE	POLYA	0.930525	0.028411	0.032642	0.008422	87.12	2.25	10.48	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703467	F	M	NA	Conflict	0.07	1.72	0.00	16.11	9.21	44.85	NONE	POLYA	0.933716	0.02954	0.032692	0.004052	86.81	1.80	11.24	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703468	F	M	NA	Conflict	0.06	1.91	0.00	10.88	5.74	51.96	NONE	POLYA	0.929237	0.026039	0.033129	0.011595	85.92	2.69	11.26	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703469	F	F	NA	Agree	23.55	0.00	0.00	0.12	0.10	0.35	NONE	POLYA	0.921752	0.037664	0.032216	0.008368	85.17	2.24	12.46	48	LP2 (2026-09-30)	PASS	NonPolyA_perM 48 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703470	F	F	NA	Agree	8.03	0.00	0.00	0.12	0.06	0.49	NONE	POLYA	0.919888	0.024775	0.033298	0.02204	82.63	3.26	13.98	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7703471	F	F	NA	Agree	8.55	0.18	0.00	0.34	0.28	2.07	NONE	POLYA	0.927169	0.027014	0.032324	0.013494	84.21	2.57	13.08	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does