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
GSM8261842	not_specified	Undetermined	NA	Conflict	37.48	2.58	0.00	16.18	3.66	27.16	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.930588	0.036733	0.028659	0.004021	94.20	2.71	2.89	56	LP2 (2026-09-30)	PASS	NonPolyA_perM 56 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8261843	not_specified	Undetermined	NA	Conflict	39.28	2.41	0.00	17.05	3.26	22.32	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.93113	0.03675	0.028779	0.003341	95.18	2.79	1.83	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8261844	not_specified	Undetermined	NA	Conflict	38.89	3.14	0.00	13.86	3.76	23.71	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.930109	0.037502	0.029065	0.003325	94.58	2.76	2.46	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8261845	not_specified	Undetermined	NA	Conflict	43.24	1.59	0.00	13.01	4.28	19.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.940579	0.031217	0.025819	0.002384	94.88	2.23	2.76	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8261846	not_specified	Undetermined	NA	Conflict	42.29	2.55	0.00	11.84	2.56	22.24	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.940003	0.031443	0.026121	0.002433	94.52	2.25	3.09	43	LP2 (2026-09-30)	PASS	NonPolyA_perM 43 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8261847	not_specified	Undetermined	NA	Conflict	42.30	1.95	0.00	11.18	3.85	19.68	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.939619	0.031636	0.026213	0.002532	95.13	2.29	2.43	44	LP2 (2026-09-30)	PASS	NonPolyA_perM 44 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does