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
GSM9351389	M	M	NA	Agree	0.01	8.69	0.00	39.47	20.07	42.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.849932	0.081043	0.034116	0.034909	93.73	4.32	1.80	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9351390	M	M	NA	Agree	0.00	9.66	0.00	45.81	20.40	56.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.869661	0.088143	0.033829	0.008368	96.05	2.03	1.78	83	LP2 (2026-09-30)	PASS	NonPolyA_perM 83 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9351391	M	M	NA	Agree	0.02	10.61	0.00	52.82	20.28	53.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.860445	0.098843	0.035983	0.004729	95.85	1.76	2.24	98	LP2 (2026-09-30)	PASS	NonPolyA_perM 98 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9351392	M	M	NA	Agree	0.00	11.50	0.00	54.17	20.38	72.67	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.853934	0.10591	0.036087	0.004068	95.88	1.74	2.23	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9351393	M	M	NA	Agree	0.02	12.83	0.00	52.10	20.73	74.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.864935	0.094397	0.036583	0.004085	95.99	1.70	2.17	91	LP2 (2026-09-30)	PASS	NonPolyA_perM 91 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9351394	M	M	NA	Agree	0.02	12.64	0.00	51.96	21.44	72.51	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.844297	0.117155	0.036524	0.002024	96.20	1.53	2.13	102	LP2 (2026-09-30)	PASS	NonPolyA_perM 102 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does