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
GSM5918022	M	M	NA	Agree	0.26	8.54	0.00	9.90	5.06	13.26	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.579896	0.217047	0.176449	0.026608	65.37	24.22	5.95	10000	LP2 (2026-09-30)	PASS	NonPolyA_perM 10000 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918023	M	M	NA	Agree	0.18	8.33	0.00	11.85	2.56	16.27	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.596975	0.191206	0.173526	0.038293	66.11	24.13	5.44	9875	LP2 (2026-09-30)	PASS	NonPolyA_perM 9875 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918024	M	M	NA	Agree	0.12	17.13	0.00	26.77	8.72	52.30	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.670498	0.154473	0.148097	0.026932	73.41	19.14	4.11	16113	LP2 (2026-09-30)	PASS	NonPolyA_perM 16113 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918025	M	M	NA	Agree	0.11	6.75	0.00	10.12	4.64	15.06	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.591841	0.150862	0.226508	0.030789	62.63	29.03	3.93	3231	LP2 (2026-09-30)	PASS	NonPolyA_perM 3231 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918026	M	M	NA	Agree	0.27	9.97	0.00	9.75	4.82	14.12	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.571149	0.216289	0.174361	0.038201	64.89	24.34	7.25	8350	LP2 (2026-09-30)	PASS	NonPolyA_perM 8350 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918027	M	M	NA	Agree	0.01	6.24	0.00	1.99	2.87	6.37	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.606105	0.067792	0.209885	0.116218	50.55	37.54	8.18	3198	LP2 (2026-09-30)	PASS	NonPolyA_perM 3198 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918028	M	M	NA	Agree	0.05	7.50	0.00	10.00	3.98	27.62	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.613467	0.147575	0.18197	0.056988	63.27	27.10	5.54	6070	LP2 (2026-09-30)	PASS	NonPolyA_perM 6070 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918029	M	M	NA	Agree	0.13	8.14	0.00	9.80	4.68	14.31	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.597574	0.162494	0.174951	0.064981	62.22	28.29	5.86	9345	LP2 (2026-09-30)	PASS	NonPolyA_perM 9345 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918030	M	M	NA	Agree	0.06	6.68	0.00	5.52	3.32	10.63	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.569067	0.109841	0.1832	0.137892	55.00	36.18	5.25	6123	LP2 (2026-09-30)	PASS	NonPolyA_perM 6123 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918031	M	M	NA	Agree	0.03	5.59	0.00	3.57	2.55	6.33	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.630742	0.101757	0.205907	0.061594	55.98	33.68	5.68	4540	LP2 (2026-09-30)	PASS	NonPolyA_perM 4540 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918032	M	M	NA	Agree	0.05	7.12	0.00	14.08	4.50	27.44	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.596494	0.139163	0.187882	0.076462	63.86	27.34	5.37	10357	LP2 (2026-09-30)	PASS	NonPolyA_perM 10357 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918033	M	M	NA	Agree	0.05	7.43	0.00	9.75	3.99	22.62	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.586979	0.115992	0.176587	0.120441	58.23	31.90	6.24	8570	LP2 (2026-09-30)	PASS	NonPolyA_perM 8570 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918034	M	M	NA	Agree	0.04	6.83	0.00	10.17	3.76	21.55	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.622488	0.113774	0.181245	0.082493	60.71	30.95	4.46	8895	LP2 (2026-09-30)	PASS	NonPolyA_perM 8895 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918035	M	M	NA	Agree	0.04	7.72	0.00	11.35	4.15	31.55	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.61643	0.10526	0.173643	0.104667	59.84	31.45	4.91	8069	LP2 (2026-09-30)	PASS	NonPolyA_perM 8069 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918036	M	M	NA	Agree	0.09	8.69	0.00	10.14	4.58	15.52	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.558372	0.116955	0.152122	0.172551	55.08	35.33	6.33	9388	LP2 (2026-09-30)	PASS	NonPolyA_perM 9388 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918037	M	M	NA	Agree	0.37	8.93	0.00	10.64	4.96	15.28	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.457136	0.195301	0.123276	0.224288	54.25	36.48	6.78	9947	LP2 (2026-09-30)	PASS	NonPolyA_perM 9947 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918038	M	M	NA	Agree	0.16	7.36	0.00	7.23	4.13	12.51	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.444076	0.137373	0.144378	0.274173	46.17	42.21	8.99	8008	LP2 (2026-09-30)	LOW_MAPPING	NonPolyA_perM 8008 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918039	M	M	NA	Agree	0.14	8.09	0.00	7.78	4.29	13.25	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.559582	0.111281	0.145704	0.183434	53.68	36.52	6.95	5316	LP2 (2026-09-30)	PASS	NonPolyA_perM 5316 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918040	M	M	NA	Agree	0.39	8.30	0.00	10.96	5.20	17.61	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.517924	0.238556	0.12795	0.115571	64.26	28.36	4.84	6020	LP2 (2026-09-30)	PASS	NonPolyA_perM 6020 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918041	M	M	NA	Agree	0.33	9.33	0.00	12.77	5.48	17.71	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.534942	0.197748	0.135388	0.131922	60.11	29.04	7.82	7247	LP2 (2026-09-30)	PASS	NonPolyA_perM 7247 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918042	M	M	NA	Agree	0.14	6.71	0.00	8.60	3.95	14.91	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.626538	0.163609	0.167328	0.042525	66.98	25.57	3.58	6244	LP2 (2026-09-30)	PASS	NonPolyA_perM 6244 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918043	M	M	NA	Agree	0.03	7.92	0.00	10.10	4.12	29.47	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.672785	0.109632	0.171121	0.046463	64.88	27.23	4.32	6385	LP2 (2026-09-30)	PASS	NonPolyA_perM 6385 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918044	M	M	NA	Agree	0.09	10.48	0.00	16.88	5.71	32.38	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.654522	0.134465	0.137874	0.073139	67.22	24.37	5.55	7526	LP2 (2026-09-30)	PASS	NonPolyA_perM 7526 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918045	M	M	NA	Agree	0.05	9.90	0.00	15.72	5.44	31.41	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.643713	0.132907	0.162885	0.060495	64.78	25.12	6.87	10074	LP2 (2026-09-30)	PASS	NonPolyA_perM 10074 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918046	M	M	NA	Agree	0.14	8.11	0.00	8.94	3.80	13.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.627903	0.165847	0.173516	0.032734	64.90	25.37	5.26	6599	LP2 (2026-09-30)	PASS	NonPolyA_perM 6599 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918047	M	M	NA	Agree	0.41	11.37	0.00	16.77	6.03	21.75	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.565491	0.264329	0.148621	0.021558	70.85	20.36	4.57	9001	LP2 (2026-09-30)	PASS	NonPolyA_perM 9001 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918048	M	M	NA	Agree	0.09	11.07	0.00	16.35	5.66	27.54	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.694731	0.137175	0.149733	0.018361	69.60	20.58	5.59	7342	LP2 (2026-09-30)	PASS	NonPolyA_perM 7342 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918049	M	M	NA	Agree	0.07	11.79	0.00	15.43	5.75	43.40	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.66921	0.120922	0.137102	0.072766	65.73	23.96	6.23	6323	LP2 (2026-09-30)	PASS	NonPolyA_perM 6323 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918050	M	M	NA	Agree	0.09	11.62	0.00	17.76	6.82	40.26	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.699033	0.128794	0.155148	0.017026	69.03	20.47	5.65	7998	LP2 (2026-09-30)	PASS	NonPolyA_perM 7998 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918051	M	M	NA	Agree	0.06	10.97	0.00	18.54	5.98	42.56	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.693136	0.111249	0.151703	0.043912	68.01	22.52	5.10	8665	LP2 (2026-09-30)	PASS	NonPolyA_perM 8665 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918052	M	M	NA	Agree	0.13	11.88	0.00	21.06	7.57	26.86	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.671861	0.157008	0.151519	0.019611	70.06	21.31	4.31	9149	LP2 (2026-09-30)	PASS	NonPolyA_perM 9149 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918053	M	M	NA	Agree	0.07	9.81	0.00	19.75	5.76	28.54	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.685808	0.13605	0.163209	0.014934	69.18	21.36	5.45	10846	LP2 (2026-09-30)	PASS	NonPolyA_perM 10846 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918054	M	M	NA	Agree	0.08	9.26	0.00	14.21	5.13	32.04	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.696082	0.133023	0.150551	0.020345	68.51	21.41	5.84	7488	LP2 (2026-09-30)	PASS	NonPolyA_perM 7488 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918055	M	M	NA	Agree	0.01	9.69	0.00	15.10	5.23	35.12	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.702447	0.113419	0.158008	0.026126	68.88	21.31	5.42	6842	LP2 (2026-09-30)	PASS	NonPolyA_perM 6842 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918056	M	M	NA	Agree	0.02	10.87	0.00	14.85	5.79	31.42	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.694754	0.112357	0.143828	0.049061	67.05	22.95	6.41	6117	LP2 (2026-09-30)	PASS	NonPolyA_perM 6117 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5918057	M	M	NA	Agree	0.07	11.90	0.00	21.26	6.99	32.75	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.716372	0.118365	0.137493	0.02777	69.96	20.25	6.05	6499	LP2 (2026-09-30)	PASS	NonPolyA_perM 6499 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not