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
GSM4276356	not_specified	M	NA	Conflict	0.04	10.58	0.00	45.87	13.58	58.69	NONE	RRNA_DEPLETED	0.61123	0.314369	0.064031	0.010371	83.58	3.78	11.97	893	LP2 (2026-09-30)	PASS	NonPolyA_perM 893 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4276357	not_specified	M	NA	Conflict	0.07	12.11	0.00	52.87	14.63	58.61	NONE	RRNA_DEPLETED	0.617655	0.309302	0.063753	0.00929	84.90	3.59	10.88	1003	LP2 (2026-09-30)	PASS	NonPolyA_perM 1003 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4276358	not_specified	M	NA	Conflict	0.06	11.48	0.00	47.90	13.99	56.00	NONE	RRNA_DEPLETED	0.500964	0.371317	0.062372	0.065347	77.34	8.59	13.38	1094	LP2 (2026-09-30)	PASS	NonPolyA_perM 1094 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4276359	not_specified	M	NA	Conflict	0.02	9.89	0.00	51.95	12.77	63.66	NONE	RRNA_DEPLETED	0.629049	0.29443	0.066781	0.00974	85.03	3.78	10.57	860	LP2 (2026-09-30)	PASS	NonPolyA_perM 860 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4276360	not_specified	M	NA	Conflict	0.02	6.86	0.00	37.55	9.91	43.45	NONE	RRNA_DEPLETED	0.637176	0.282479	0.068421	0.011924	82.02	4.57	12.73	1176	LP2 (2026-09-30)	PASS	NonPolyA_perM 1176 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not