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
GSM5551303	M	M	NA	Agree	0.00	1.94	0.00	3.94	3.90	7.75	NONE	POLYA	0.884876	0.048539	0.041175	0.02541	75.39	5.29	19.13	86	LP2 (2026-09-30)	PASS	NonPolyA_perM 86 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5551304	M	M	NA	Agree	0.00	1.40	0.00	4.89	2.12	8.19	NONE	POLYA	0.873937	0.05285	0.045603	0.02761	77.79	6.40	15.56	96	LP2 (2026-09-30)	PASS	NonPolyA_perM 96 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5551305	M	M	NA	Agree	0.16	3.95	0.00	15.97	10.08	44.49	NONE	POLYA	0.61564	0.168313	0.085018	0.13103	80.49	13.55	5.68	256	LP2 (2026-09-30)	PASS	NonPolyA_perM 256 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5551306	M	M	NA	Agree	0.27	6.19	0.00	33.79	13.91	48.27	NONE	POLYA	0.789489	0.130773	0.040483	0.039256	91.03	5.01	3.79	150	LP2 (2026-09-30)	PASS	NonPolyA_perM 150 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does