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 3 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
GSM6805944	F	F	NA	Agree	67.12	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.907698	0.053262	0.037057	0.001983	91.89	3.99	3.79	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805945	F	F	NA	Agree	5.56	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.943019	0.025535	0.029193	0.002253	92.41	3.88	3.48	104	LP2 (2026-09-30)	PASS	NonPolyA_perM 104 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805946	F	F	NA	Agree	71.88	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.920264	0.043462	0.034253	0.00202	92.71	3.90	3.09	97	LP2 (2026-09-30)	PASS	NonPolyA_perM 97 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805947	F	F	NA	Agree	1.66	0.00	0.00	0.00	0.00	0.02	NONE	POLYA	0.948531	0.019932	0.028028	0.003509	91.89	4.51	3.48	98	LP2 (2026-09-30)	PASS	NonPolyA_perM 98 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805948	F	Undetermined	NA	Conflict	0.72	0.00	0.00	0.14	0.00	1.85	NONE	POLYA	0.89933	0.042614	0.0518	0.006257	82.03	3.87	13.97	120	LP2 (2026-09-30)	PASS	NonPolyA_perM 120 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805949	F	F	NA	Agree	81.94	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.922913	0.041164	0.034623	0.0013	93.43	3.51	2.86	81	LP2 (2026-09-30)	PASS	NonPolyA_perM 81 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805950	F	F	NA	Agree	147.84	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.898771	0.064637	0.035476	0.001115	94.74	2.03	3.06	86	LP2 (2026-09-30)	PASS	NonPolyA_perM 86 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805951	F	F	NA	Agree	40.51	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.93234	0.030844	0.035094	0.001722	93.85	3.31	2.64	86	LP2 (2026-09-30)	PASS	NonPolyA_perM 86 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805952	F	F	NA	Agree	95.02	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.926508	0.035216	0.036811	0.001464	95.52	1.75	2.54	49	LP2 (2026-09-30)	PASS	NonPolyA_perM 49 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805953	F	F	NA	Agree	9.97	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.92366	0.036091	0.038838	0.001411	94.38	2.27	3.23	86	LP2 (2026-09-30)	PASS	NonPolyA_perM 86 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805954	F	F	NA	Agree	103.40	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.909793	0.049065	0.040041	0.001102	94.28	1.95	3.61	83	LP2 (2026-09-30)	PASS	NonPolyA_perM 83 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805955	F	Undetermined	NA	Conflict	0.74	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.940955	0.027236	0.02849	0.003319	92.44	3.39	4.08	77	LP2 (2026-09-30)	PASS	NonPolyA_perM 77 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805956	F	F	NA	Agree	2.59	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.932692	0.030719	0.033662	0.002927	93.10	3.26	3.54	71	LP2 (2026-09-30)	PASS	NonPolyA_perM 71 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805957	F	F	NA	Agree	173.41	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.890826	0.07023	0.037432	0.001512	94.54	1.90	3.39	113	LP2 (2026-09-30)	PASS	NonPolyA_perM 113 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805958	F	F	NA	Agree	116.08	0.00	0.00	0.03	0.00	0.00	NONE	POLYA	0.917132	0.04644	0.035364	0.001064	94.13	1.91	3.80	72	LP2 (2026-09-30)	PASS	NonPolyA_perM 72 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6805959	F	F	NA	Agree	130.76	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.899524	0.060415	0.038125	0.001936	94.66	2.08	3.05	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does