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
GSM2196467	F	F	NA	Agree	67.40	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.874419	0.045515	0.050945	0.029121	85.43	6.48	7.45	106	LP2 (2026-09-30)	PASS	NonPolyA_perM 106 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2196468	F	F	NA	Agree	45.41	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883287	0.045447	0.059241	0.012024	85.82	5.03	8.46	116	LP2 (2026-09-30)	PASS	NonPolyA_perM 116 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2196469	F	F	NA	Agree	67.48	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.881074	0.046848	0.048355	0.023723	85.49	5.77	8.12	110	LP2 (2026-09-30)	PASS	NonPolyA_perM 110 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2196470	F	F	NA	Agree	51.98	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.892885	0.046443	0.044888	0.015784	84.58	5.03	9.90	125	LP2 (2026-09-30)	PASS	NonPolyA_perM 125 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does