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 (2026-10-22) 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
GSM8694068	M	M	NA	Agree	0.15	10.86	0.00	18.25	10.71	39.47	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.570719	0.354802	0.073225	0.001254	92.38	5.09	2.07	1276	LP2 (2026-09-30)	PASS	NonPolyA_perM 1276 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694069	M	M	NA	Agree	0.12	5.47	0.00	12.89	7.40	31.53	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.639025	0.27744	0.078536	0.004999	90.12	6.82	2.62	1917	LP2 (2026-09-30)	PASS	NonPolyA_perM 1917 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694070	M	F	NA	Conflict	49.13	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.690058	0.210814	0.092047	0.007081	88.62	8.59	2.12	3507	LP2 (2026-09-30)	PASS	NonPolyA_perM 3507 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694078	M	M	NA	Agree	0.13	8.93	0.00	16.56	8.76	38.74	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.604387	0.322233	0.071682	0.001698	92.81	4.73	2.00	1156	LP2 (2026-09-30)	PASS	NonPolyA_perM 1156 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694079	M	M	NA	Agree	0.19	7.12	0.00	11.17	6.62	20.15	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.509115	0.395104	0.092386	0.003395	89.44	7.39	2.66	2846	LP2 (2026-09-30)	PASS	NonPolyA_perM 2846 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694080	M	M	NA	Agree	0.09	6.72	0.00	14.17	7.09	34.61	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.705446	0.215878	0.075666	0.00301	91.50	5.95	2.14	1388	LP2 (2026-09-30)	PASS	NonPolyA_perM 1388 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694081	M	M	NA	Agree	0.05	6.09	0.00	12.08	7.68	31.49	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.607217	0.292217	0.081717	0.018848	89.06	7.93	2.53	2115	LP2 (2026-09-30)	PASS	NonPolyA_perM 2115 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694082	M	M	NA	Agree	0.35	33.12	0.00	58.43	28.88	54.90	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.447016	0.503494	0.048728	0.000762	94.78	2.31	2.44	842	LP2 (2026-09-30)	PASS	NonPolyA_perM 842 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694083	M	M	NA	Agree	0.11	20.22	0.00	38.82	16.71	38.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.469714	0.472217	0.057161	0.000908	93.61	3.43	2.52	1027	LP2 (2026-09-30)	PASS	NonPolyA_perM 1027 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694084	M	M	NA	Agree	1.17	29.69	0.00	54.80	25.43	69.66	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.447224	0.391759	0.047907	0.11311	83.89	12.73	2.98	1104	LP2 (2026-09-30)	PASS	NonPolyA_perM 1104 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694085	M	M	NA	Agree	0.34	17.30	0.00	31.53	14.83	45.83	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.5577	0.390872	0.05056	0.000868	92.85	4.61	2.04	669	LP2 (2026-09-30)	PASS	NonPolyA_perM 669 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM8694093	M	M	NA	Agree	0.38	21.06	0.00	38.53	22.26	45.51	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.459942	0.484082	0.054916	0.00106	93.58	2.91	3.01	1098	LP2 (2026-09-30)	PASS	NonPolyA_perM 1098 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694094	M	M	NA	Agree	0.24	13.96	0.00	28.70	16.83	42.37	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.509709	0.421814	0.06613	0.002347	91.32	4.61	3.45	1442	LP2 (2026-09-30)	PASS	NonPolyA_perM 1442 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8694095	M	M	NA	Agree	0.19	23.63	0.00	41.71	21.04	63.38	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.547195	0.395387	0.053117	0.004302	94.55	2.97	2.05	698	LP2 (2026-09-30)	PASS	NonPolyA_perM 698 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM8694096	M	M	NA	Agree	0.94	9.99	0.00	18.99	9.94	23.24	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.481308	0.452179	0.064688	0.001825	90.75	4.74	4.05	1301	LP2 (2026-09-30)	PASS	NonPolyA_perM 1301 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not