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 (2026-10-16) 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
GSM4610174	M	M	NA	Agree	0.40	9.23	0.00	32.17	7.47	27.24	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.708927	0.235925	0.051349	0.003799	85.86	8.68	1.61	4189	LP2 (2026-09-30)	PASS	NonPolyA_perM 4189 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610175	M	M	NA	Agree	0.37	8.52	0.00	32.21	8.00	28.35	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.715033	0.234636	0.047789	0.002543	87.14	7.98	1.42	3614	LP2 (2026-09-30)	PASS	NonPolyA_perM 3614 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610176	M	M	NA	Agree	0.61	9.01	0.00	34.38	7.81	31.63	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.708527	0.23843	0.049909	0.003133	86.90	8.08	1.55	3506	LP2 (2026-09-30)	PASS	NonPolyA_perM 3506 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610177	M	M	NA	Agree	0.34	9.90	0.00	35.03	7.63	29.08	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.705179	0.242713	0.04951	0.002597	87.17	7.71	1.40	3759	LP2 (2026-09-30)	PASS	NonPolyA_perM 3759 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610178	M	M	NA	Agree	0.32	8.51	0.00	32.27	9.13	31.72	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.709535	0.236801	0.050994	0.00267	86.86	8.14	1.40	3436	LP2 (2026-09-30)	PASS	NonPolyA_perM 3436 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610179	M	M	NA	Agree	0.55	19.30	0.00	44.43	16.91	43.70	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.644902	0.303414	0.049308	0.002376	89.71	5.65	1.58	4320	LP2 (2026-09-30)	PASS	NonPolyA_perM 4320 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610180	M	M	NA	Agree	0.50	14.02	0.00	43.21	13.79	42.71	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.676836	0.270548	0.050741	0.001874	89.47	6.11	1.28	4050	LP2 (2026-09-30)	PASS	NonPolyA_perM 4050 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610181	M	M	NA	Agree	0.71	16.34	0.00	45.65	14.90	43.14	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.60709	0.33876	0.052212	0.001938	89.36	5.96	1.37	5327	LP2 (2026-09-30)	PASS	NonPolyA_perM 5327 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610182	M	M	NA	Agree	0.58	14.36	0.00	42.74	13.84	41.71	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.677691	0.270742	0.049884	0.001683	89.57	5.85	1.26	3646	LP2 (2026-09-30)	PASS	NonPolyA_perM 3646 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610183	M	M	NA	Agree	0.56	10.63	0.00	37.30	9.42	38.91	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.704009	0.245257	0.048014	0.002719	87.66	7.49	1.38	2648	LP2 (2026-09-30)	PASS	NonPolyA_perM 2648 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610184	M	M	NA	Agree	0.51	9.51	0.00	36.63	8.01	30.83	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.722135	0.229371	0.045892	0.002602	87.43	7.80	1.42	3098	LP2 (2026-09-30)	PASS	NonPolyA_perM 3098 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610185	M	M	NA	Agree	0.42	8.58	0.00	32.36	6.96	29.22	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.719142	0.224837	0.052684	0.003336	86.58	8.49	1.59	3827	LP2 (2026-09-30)	PASS	NonPolyA_perM 3827 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610186	M	M	NA	Agree	0.44	8.94	0.00	29.40	7.63	25.99	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.720502	0.223338	0.052579	0.003581	86.51	8.48	1.61	3606	LP2 (2026-09-30)	PASS	NonPolyA_perM 3606 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610187	M	M	NA	Agree	0.36	8.82	0.00	30.60	7.80	29.01	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.721369	0.225927	0.049028	0.003676	87.50	7.75	1.58	3518	LP2 (2026-09-30)	PASS	NonPolyA_perM 3518 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610188	M	M	NA	Agree	0.24	8.38	0.00	29.85	7.56	27.79	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.715258	0.230675	0.051179	0.002888	87.43	7.78	1.46	3863	LP2 (2026-09-30)	PASS	NonPolyA_perM 3863 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610189	M	M	NA	Agree	0.58	10.93	0.00	29.25	10.35	32.72	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.6074	0.323871	0.066857	0.001872	86.44	7.51	1.43	8752	LP2 (2026-09-30)	PASS	NonPolyA_perM 8752 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610190	M	M	NA	Agree	0.68	15.58	0.00	38.29	14.73	43.95	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.614846	0.329668	0.053755	0.00173	89.87	5.67	1.34	5971	LP2 (2026-09-30)	PASS	NonPolyA_perM 5971 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610191	M	M	NA	Agree	0.59	14.55	0.00	34.38	13.49	39.61	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.605841	0.338732	0.053438	0.00199	89.74	5.74	1.32	6478	LP2 (2026-09-30)	PASS	NonPolyA_perM 6478 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610192	M	M	NA	Agree	0.58	14.41	0.00	40.97	13.24	35.81	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.603291	0.338269	0.057018	0.001422	89.35	5.99	1.29	6233	LP2 (2026-09-30)	PASS	NonPolyA_perM 6233 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4610193	M	M	NA	Agree	0.46	12.04	0.00	34.58	12.41	36.25	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.604182	0.333195	0.060733	0.001891	88.15	6.53	1.36	7862	LP2 (2026-09-30)	PASS	NonPolyA_perM 7862 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not