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). For 4 samples processed before workflow 2.1, ComputedSex is the earlier curated call, kept after review where it differed from the rule above.
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
GSM7764728	F	F	NA	Agree	14.87	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.941245	0.018949	0.026195	0.01361	87.28	3.15	9.43	34	LP2 (2026-09-30)	PASS	NonPolyA_perM 34 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764729	F	F	NA	Agree	22.07	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.933257	0.022994	0.026752	0.016997	85.34	3.40	11.13	92	LP2 (2026-09-30)	PASS	NonPolyA_perM 92 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764730	F	F	NA	Agree	17.17	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.938298	0.022024	0.027892	0.011786	86.17	3.02	10.68	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764731	F	F	NA	Agree	7.36	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.94279	0.016975	0.029027	0.011207	87.75	2.60	9.49	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764732	F	F	NA	Agree	3.51	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.949635	0.016176	0.028546	0.005644	87.92	2.29	9.65	22	LP2 (2026-09-30)	PASS	NonPolyA_perM 22 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764733	F	F	NA	Agree	9.24	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.932657	0.018274	0.032578	0.016491	79.80	2.85	17.20	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764734	F	F	NA	Agree	11.36	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.918665	0.020778	0.028422	0.032135	87.10	4.85	7.89	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764735	F	F	NA	Agree	6.07	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.932417	0.019052	0.029602	0.018929	89.77	4.00	6.06	64	LP2 (2026-09-30)	PASS	NonPolyA_perM 64 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7764736	F	F	NA	Agree	5.48	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.935352	0.018581	0.02823	0.017837	88.90	3.94	7.01	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does