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
GSM6726924	M	M	NA	Agree	0.03	6.01	0.00	39.88	26.80	50.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.87117	0.08645	0.041719	0.000661	89.24	1.85	8.57	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6726925	M	M	NA	Agree	0.00	5.45	0.00	45.34	23.81	47.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.867214	0.096299	0.035769	0.000718	89.08	1.67	8.88	81	LP2 (2026-09-30)	PASS	NonPolyA_perM 81 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6726926	M	M	NA	Agree	0.04	5.03	0.00	43.49	19.54	47.95	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865918	0.09675	0.036351	0.000981	87.57	1.82	10.12	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6726927	M	M	NA	Agree	0.05	6.99	0.00	48.13	28.74	38.76	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.855386	0.104461	0.039603	0.00055	86.74	2.03	10.53	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6726928	M	M	NA	Agree	0.02	6.48	0.00	45.79	25.47	53.45	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.859724	0.101872	0.037975	0.000428	86.59	2.61	10.11	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6726929	M	M	NA	Agree	0.01	7.27	3.50	50.14	30.37	52.07	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.869463	0.094386	0.03569	0.00046	87.97	3.25	7.65	49	LP2 (2026-09-30)	PASS	NonPolyA_perM 49 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does