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 (2026-10-22) 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
GSM6856779	M	M	NA	Agree	0.00	3.00	0.00	17.93	11.15	66.37	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.89734	0.054035	0.047337	0.001288	90.25	2.68	6.75	87	LP2 (2026-09-30)	PASS	NonPolyA_perM 87 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6856780	M	M	NA	Agree	0.06	3.51	0.00	22.06	14.80	63.34	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898009	0.05609	0.044455	0.001446	91.82	2.18	5.75	71	LP2 (2026-09-30)	PASS	NonPolyA_perM 71 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6856781	M	M	NA	Agree	0.05	2.57	0.00	16.12	14.59	65.40	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898203	0.052344	0.047885	0.001568	90.67	2.37	6.71	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6856782	M	M	NA	Agree	0.00	2.85	0.00	21.02	13.74	68.29	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.896375	0.055748	0.046979	0.000898	91.99	2.25	5.45	65	LP2 (2026-09-30)	PASS	NonPolyA_perM 65 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6856783	M	M	NA	Agree	0.00	2.72	0.00	13.32	9.78	57.83	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.900777	0.050174	0.046492	0.002556	94.25	2.68	2.79	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6856784	M	M	NA	Agree	0.01	4.85	0.00	27.24	17.69	66.50	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.863634	0.08486	0.048592	0.002914	94.45	2.37	2.88	90	LP2 (2026-09-30)	PASS	NonPolyA_perM 90 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does