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 (2026-10-16) 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
GSM2679434	M	M	NA	Agree	0.00	5.93	0.00	67.29	14.52	39.58	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.867661	0.083649	0.041645	0.007046	91.96	4.49	2.89	127	LP2 (2026-09-30)	PASS	NonPolyA_perM 127 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2679435	M	M	NA	Agree	0.00	5.61	0.00	58.43	15.93	36.64	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.86677	0.081635	0.042231	0.009364	92.93	4.78	1.65	144	LP2 (2026-09-30)	PASS	NonPolyA_perM 144 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2679436	M	M	NA	Agree	0.01	5.84	0.00	70.71	15.24	37.01	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.853712	0.099348	0.040218	0.006723	92.62	4.36	2.23	169	LP2 (2026-09-30)	PASS	NonPolyA_perM 169 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2679437	M	M	NA	Agree	0.00	1.62	0.00	14.68	5.49	14.16	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.90196	0.056458	0.032207	0.009375	79.72	16.81	3.03	85	LP2 (2026-09-30)	PASS	NonPolyA_perM 85 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2679438	M	M	NA	Agree	0.01	1.48	0.00	13.82	5.09	13.41	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.910112	0.051312	0.030059	0.008517	79.67	15.60	4.32	76	LP2 (2026-09-30)	PASS	NonPolyA_perM 76 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2679439	M	M	NA	Agree	0.00	1.06	0.00	8.07	3.52	9.33	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.921637	0.03732	0.029009	0.012034	74.81	21.37	3.40	45	LP2 (2026-09-30)	PASS	NonPolyA_perM 45 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does