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 (2026-10-20) 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 10 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
GSM8084067	both	both	NA	Agree	95.37	2.72	0.00	5.56	4.16	9.55	NONE	RRNA_DEPLETED	0.313169	0.315918	0.099388	0.271526	56.54	34.88	5.89	4113	LP2 (2026-09-30)	PASS	NonPolyA_perM 4113 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084068	both	both	NA	Agree	28.95	11.19	0.00	19.30	12.97	29.92	NONE	RRNA_DEPLETED	0.399718	0.401071	0.09063	0.108581	73.07	19.17	5.31	3388	LP2 (2026-09-30)	PASS	NonPolyA_perM 3388 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084069	both	both	NA	Agree	119.63	4.16	0.00	9.23	6.33	15.68	NONE	RRNA_DEPLETED	0.391242	0.46223	0.081453	0.065074	78.22	13.54	5.65	3652	LP2 (2026-09-30)	PASS	NonPolyA_perM 3652 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084070	both	F	NA	Conflict	188.69	0.00	0.00	0.03	0.00	0.00	NONE	RRNA_DEPLETED	0.373019	0.382827	0.091629	0.152525	68.86	22.82	5.50	4064	LP2 (2026-09-30)	PASS	NonPolyA_perM 4064 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084071	both	both	NA	Agree	65.04	8.48	0.00	14.66	8.96	23.46	NONE	RRNA_DEPLETED	0.391263	0.415375	0.091822	0.10154	73.72	18.01	5.51	4211	LP2 (2026-09-30)	PASS	NonPolyA_perM 4211 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084072	both	both	NA	Agree	26.98	7.21	0.00	15.78	10.14	22.11	NONE	RRNA_DEPLETED	0.32482	0.408033	0.079349	0.187797	66.78	24.45	5.95	4112	LP2 (2026-09-30)	PASS	NonPolyA_perM 4112 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084073	both	both	NA	Agree	168.41	7.38	0.00	14.53	8.73	18.85	NONE	RRNA_DEPLETED	0.377271	0.504357	0.078282	0.04009	81.20	10.29	6.20	2212	LP2 (2026-09-30)	PASS	NonPolyA_perM 2212 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084074	both	both	NA	Agree	50.39	7.67	0.00	15.28	9.04	24.50	NONE	RRNA_DEPLETED	0.401778	0.45894	0.079467	0.059815	78.96	12.66	5.71	3468	LP2 (2026-09-30)	PASS	NonPolyA_perM 3468 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084075	both	both	NA	Agree	100.38	5.44	0.00	8.88	5.93	11.81	NONE	RRNA_DEPLETED	0.360191	0.420527	0.07967	0.139612	71.75	20.19	5.48	3374	LP2 (2026-09-30)	PASS	NonPolyA_perM 3374 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084076	both	F	NA	Conflict	219.85	0.09	0.00	0.08	0.10	0.13	NONE	RRNA_DEPLETED	0.362472	0.494689	0.080042	0.062798	78.28	12.50	6.33	3557	LP2 (2026-09-30)	PASS	NonPolyA_perM 3557 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084077	both	both	NA	Agree	144.41	3.63	0.00	6.45	4.88	11.39	NONE	RRNA_DEPLETED	0.356031	0.385174	0.095921	0.162874	67.09	24.09	6.02	3094	LP2 (2026-09-30)	PASS	NonPolyA_perM 3094 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084078	both	F	NA	Conflict	189.92	0.02	0.00	0.00	0.00	0.00	NONE	RRNA_DEPLETED	0.367605	0.45254	0.076722	0.103133	74.49	16.27	6.27	3121	LP2 (2026-09-30)	PASS	NonPolyA_perM 3121 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084079	both	F	NA	Conflict	195.94	0.32	0.00	0.76	0.51	1.26	NONE	RRNA_DEPLETED	0.416842	0.443218	0.07559	0.06435	79.51	12.46	5.57	3005	LP2 (2026-09-30)	PASS	NonPolyA_perM 3005 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084080	both	both	NA	Agree	76.99	1.97	0.00	4.58	2.57	5.61	NONE	RRNA_DEPLETED	0.258664	0.319615	0.06723	0.354491	54.25	38.83	4.81	3929	LP2 (2026-09-30)	PASS	NonPolyA_perM 3929 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8084081	both	M	NA	Conflict	0.11	7.33	0.00	16.04	11.64	25.06	NONE	RRNA_DEPLETED	0.365473	0.485906	0.074332	0.074289	78.36	12.81	5.87	3484	LP2 (2026-09-30)	PASS	NonPolyA_perM 3484 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not