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
GSM5997688	F	F	NA	Agree	26.18	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.944636	0.033824	0.021415	0.000125	94.57	1.69	3.60	48	LP2 (2026-09-30)	PASS	NonPolyA_perM 48 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5997689	F	F	NA	Agree	22.36	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.9532	0.025613	0.021095	0.000093	95.21	1.64	2.98	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5997690	F	F	NA	Agree	49.21	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.920546	0.044856	0.034445	0.000153	92.94	2.16	4.75	161	LP2 (2026-09-30)	PASS	NonPolyA_perM 161 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5997691	F	F	NA	Agree	47.22	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.923319	0.044417	0.032067	0.000197	93.66	2.13	4.07	178	LP2 (2026-09-30)	PASS	NonPolyA_perM 178 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5997692	F	F	NA	Agree	22.87	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.942334	0.033089	0.024457	0.00012	93.66	1.85	4.36	78	LP2 (2026-09-30)	PASS	NonPolyA_perM 78 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5997693	F	F	NA	Agree	107.09	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.889339	0.075539	0.035017	0.000105	92.97	1.88	4.99	197	LP2 (2026-09-30)	PASS	NonPolyA_perM 197 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does