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).
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
GSM3266788	M	M	NA	Agree	0.02	6.02	0.00	28.71	9.83	25.03	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.777289	0.097986	0.096009	0.028716	84.53	11.24	2.28	5673	LP2 (2026-09-30)	PASS	NonPolyA_perM 5673 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266789	M	M	NA	Agree	0.01	6.38	0.00	31.14	10.04	28.64	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.777114	0.098356	0.095725	0.028805	84.64	11.20	2.22	5685	LP2 (2026-09-30)	PASS	NonPolyA_perM 5685 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266790	M	M	NA	Agree	0.04	5.52	0.00	30.31	9.40	30.08	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.776968	0.098316	0.096026	0.028689	84.59	11.26	2.22	5676	LP2 (2026-09-30)	PASS	NonPolyA_perM 5676 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266791	M	M	NA	Agree	0.00	6.67	0.00	34.57	10.89	38.26	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.785159	0.087278	0.094455	0.033108	84.88	11.43	2.04	5319	LP2 (2026-09-30)	PASS	NonPolyA_perM 5319 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266792	M	M	NA	Agree	0.00	6.51	0.00	32.75	10.46	35.67	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.784672	0.08773	0.094172	0.033426	84.92	11.45	1.96	5204	LP2 (2026-09-30)	PASS	NonPolyA_perM 5204 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266793	M	M	NA	Agree	0.00	6.00	0.00	34.49	9.60	35.56	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.784638	0.087584	0.094583	0.033195	84.94	11.48	1.92	5308	LP2 (2026-09-30)	PASS	NonPolyA_perM 5308 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266794	M	M	NA	Agree	0.05	10.13	0.00	40.23	13.94	37.07	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.718454	0.180377	0.080175	0.020994	88.15	7.67	2.50	4673	LP2 (2026-09-30)	PASS	NonPolyA_perM 4673 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266795	M	M	NA	Agree	0.02	11.08	0.00	36.70	14.17	37.44	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.718957	0.180111	0.080264	0.020668	88.24	7.62	2.44	4671	LP2 (2026-09-30)	PASS	NonPolyA_perM 4671 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266796	M	M	NA	Agree	0.00	9.79	0.00	39.90	14.37	41.41	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.719067	0.180094	0.079922	0.020917	88.20	7.68	2.44	4705	LP2 (2026-09-30)	PASS	NonPolyA_perM 4705 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266797	M	M	NA	Agree	0.00	7.86	0.00	40.90	12.03	40.79	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.790493	0.100092	0.084739	0.024676	87.20	9.58	1.49	4976	LP2 (2026-09-30)	PASS	NonPolyA_perM 4976 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266798	M	M	NA	Agree	0.01	7.80	0.00	42.24	11.77	47.25	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.790479	0.100328	0.084481	0.024711	87.26	9.59	1.41	4865	LP2 (2026-09-30)	PASS	NonPolyA_perM 4865 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266799	M	M	NA	Agree	0.01	7.86	0.00	39.67	12.29	42.89	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.790379	0.100129	0.084964	0.024528	87.26	9.60	1.39	5060	LP2 (2026-09-30)	PASS	NonPolyA_perM 5060 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266800	M	M	NA	Agree	0.04	9.14	0.00	39.65	11.32	41.83	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.779227	0.107051	0.081248	0.032474	86.83	9.83	1.69	5336	LP2 (2026-09-30)	PASS	NonPolyA_perM 5336 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266801	M	M	NA	Agree	0.01	9.12	0.00	40.72	12.22	44.69	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.779548	0.107072	0.080759	0.03262	86.88	9.79	1.67	5351	LP2 (2026-09-30)	PASS	NonPolyA_perM 5351 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266802	M	M	NA	Agree	0.01	7.90	0.00	39.79	12.38	42.26	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.779473	0.106327	0.081696	0.032504	86.84	9.84	1.67	5326	LP2 (2026-09-30)	PASS	NonPolyA_perM 5326 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266803	M	M	NA	Agree	0.00	6.31	0.00	28.24	9.42	30.14	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.784699	0.09666	0.102295	0.016346	85.54	10.99	1.57	5072	LP2 (2026-09-30)	PASS	NonPolyA_perM 5072 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266804	M	M	NA	Agree	0.00	6.24	0.00	30.71	8.52	32.48	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.784428	0.097227	0.101965	0.01638	85.59	10.97	1.52	5013	LP2 (2026-09-30)	PASS	NonPolyA_perM 5013 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266805	M	M	NA	Agree	0.00	6.90	0.00	29.42	8.78	33.82	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.783965	0.096871	0.102732	0.016432	85.59	11.01	1.50	4965	LP2 (2026-09-30)	PASS	NonPolyA_perM 4965 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266806	M	M	NA	Agree	0.00	4.74	0.00	27.83	8.27	30.14	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.789487	0.072205	0.110475	0.027833	83.13	13.24	1.40	6221	LP2 (2026-09-30)	PASS	NonPolyA_perM 6221 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266807	M	M	NA	Agree	0.00	4.28	0.00	29.82	7.49	32.28	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.789496	0.072369	0.110216	0.027919	83.15	13.23	1.38	6125	LP2 (2026-09-30)	PASS	NonPolyA_perM 6125 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266808	M	M	NA	Agree	0.01	5.07	0.00	28.40	7.26	27.01	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.789221	0.072553	0.110484	0.027743	83.15	13.26	1.38	6198	LP2 (2026-09-30)	PASS	NonPolyA_perM 6198 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266809	M	M	NA	Agree	0.00	6.15	0.00	28.07	7.32	26.74	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.787975	0.080963	0.108913	0.022149	83.57	12.34	2.05	6795	LP2 (2026-09-30)	PASS	NonPolyA_perM 6795 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266810	M	M	NA	Agree	0.00	5.31	0.00	25.97	9.04	28.08	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.788014	0.080887	0.108719	0.02238	83.61	12.35	1.99	6845	LP2 (2026-09-30)	PASS	NonPolyA_perM 6845 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266811	M	M	NA	Agree	0.00	5.49	0.00	26.25	8.48	27.80	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.788069	0.080828	0.109031	0.022073	83.66	12.32	1.98	6854	LP2 (2026-09-30)	PASS	NonPolyA_perM 6854 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266812	M	M	NA	Agree	0.00	4.18	0.00	25.39	6.33	25.35	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.782898	0.067728	0.121425	0.027949	81.49	14.64	1.50	7613	LP2 (2026-09-30)	PASS	NonPolyA_perM 7613 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266813	M	M	NA	Agree	0.01	4.86	0.00	24.77	7.00	24.35	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.782964	0.067953	0.120708	0.028374	81.45	14.67	1.50	7575	LP2 (2026-09-30)	PASS	NonPolyA_perM 7575 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266814	M	M	NA	Agree	0.01	4.13	0.00	26.70	7.03	25.81	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.782669	0.067927	0.121546	0.027859	81.48	14.69	1.48	7449	LP2 (2026-09-30)	PASS	NonPolyA_perM 7449 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266815	M	M	NA	Agree	0.00	5.31	0.00	31.96	8.62	28.13	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.801231	0.069846	0.103338	0.025584	84.16	12.16	1.48	7426	LP2 (2026-09-30)	PASS	NonPolyA_perM 7426 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266816	M	M	NA	Agree	0.00	4.43	0.00	28.89	8.86	28.10	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.801415	0.069908	0.102918	0.025759	84.16	12.19	1.45	7483	LP2 (2026-09-30)	PASS	NonPolyA_perM 7483 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3266817	M	M	NA	Agree	0.00	5.17	0.00	29.76	8.69	27.85	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.801209	0.07014	0.103028	0.025623	84.21	12.17	1.44	7580	LP2 (2026-09-30)	PASS	NonPolyA_perM 7580 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not