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).
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
GSM4635966	M	M	NA	Agree	0.10	9.03	0.00	16.15	9.82	23.48	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.571918	0.336412	0.078482	0.013187	77.86	6.09	14.15	3444	LP2 (2026-09-30)	PASS	NonPolyA_perM 3444 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635967	M	M	NA	Agree	0.09	10.67	0.00	16.85	11.43	24.64	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.545448	0.363236	0.075243	0.016073	77.26	5.90	15.00	3638	LP2 (2026-09-30)	PASS	NonPolyA_perM 3638 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635968	M	M	NA	Agree	0.18	12.84	0.00	17.92	12.23	31.35	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.530838	0.382967	0.080566	0.005629	76.05	4.70	15.89	2831	LP2 (2026-09-30)	PASS	NonPolyA_perM 2831 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635969	M	M	NA	Agree	0.16	10.38	0.00	15.46	11.41	23.29	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.576459	0.328569	0.080099	0.014874	76.74	5.89	15.44	3426	LP2 (2026-09-30)	PASS	NonPolyA_perM 3426 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635970	M	M	NA	Agree	0.16	10.80	0.00	11.96	12.12	26.07	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.558405	0.349866	0.085689	0.00604	74.47	5.05	17.50	2942	LP2 (2026-09-30)	PASS	NonPolyA_perM 2942 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635971	M	M	NA	Agree	0.13	7.37	0.00	10.16	8.53	18.10	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.60529	0.301763	0.07854	0.014407	77.17	6.22	14.48	3565	LP2 (2026-09-30)	PASS	NonPolyA_perM 3565 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635972	M	M	NA	Agree	0.13	9.13	0.00	13.54	8.35	26.90	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.643199	0.257826	0.080965	0.01801	76.43	6.50	15.27	3739	LP2 (2026-09-30)	PASS	NonPolyA_perM 3739 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635973	M	M	NA	Agree	0.12	6.94	0.00	10.67	8.78	20.58	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.588686	0.291811	0.09183	0.027673	74.25	8.33	15.12	4465	LP2 (2026-09-30)	PASS	NonPolyA_perM 4465 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635974	M	M	NA	Agree	0.14	11.45	0.00	14.13	10.66	28.28	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.636445	0.281027	0.067666	0.014862	80.63	5.66	12.34	2839	LP2 (2026-09-30)	PASS	NonPolyA_perM 2839 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635975	M	M	NA	Agree	0.15	7.96	0.00	11.91	8.94	25.13	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.634235	0.267534	0.082343	0.015888	77.07	6.55	13.99	4069	LP2 (2026-09-30)	PASS	NonPolyA_perM 4069 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635976	M	M	NA	Agree	0.14	9.14	0.00	14.19	10.78	29.82	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.589086	0.316356	0.086725	0.007834	76.75	5.76	14.44	2550	LP2 (2026-09-30)	PASS	NonPolyA_perM 2550 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4635977	M	M	NA	Agree	0.10	8.22	0.00	11.66	9.86	22.44	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.646843	0.257412	0.08068	0.015065	80.10	6.52	11.68	2775	LP2 (2026-09-30)	PASS	NonPolyA_perM 2775 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not