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
GSM6234220	not_specified	Undetermined	NA	Conflict	15.11	1.41	0.00	11.78	3.62	12.44	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.89059	0.063383	0.040966	0.005061	91.32	3.43	4.45	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234221	not_specified	F	NA	Conflict	81.95	0.02	0.00	0.53	0.05	0.35	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.889366	0.066549	0.039386	0.0047	91.17	3.49	4.45	56	LP2 (2026-09-30)	PASS	NonPolyA_perM 56 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234222	not_specified	Undetermined	NA	Conflict	15.49	1.47	0.00	12.85	4.04	13.13	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.890895	0.065127	0.039378	0.0046	91.54	3.23	4.44	48	LP2 (2026-09-30)	PASS	NonPolyA_perM 48 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234223	not_specified	Undetermined	NA	Conflict	16.36	1.75	0.00	14.17	4.86	14.35	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.886356	0.066831	0.040469	0.006344	91.43	3.36	4.43	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234224	not_specified	F	NA	Conflict	65.62	0.05	0.00	0.77	0.14	0.57	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.890739	0.065053	0.038751	0.005457	92.05	3.16	4.08	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234225	not_specified	F	NA	Conflict	95.87	0.00	0.00	0.02	0.00	0.00	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.900374	0.060325	0.03354	0.005761	91.59	3.54	4.14	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234226	not_specified	M	NA	Conflict	9.62	1.95	0.00	19.20	4.66	18.24	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.893038	0.060725	0.036666	0.009572	91.77	3.89	3.47	56	LP2 (2026-09-30)	PASS	NonPolyA_perM 56 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234227	not_specified	M	NA	Conflict	7.47	1.86	0.00	17.99	5.21	17.54	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.889278	0.063874	0.035732	0.011117	92.04	3.91	3.32	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234228	not_specified	Undetermined	NA	Conflict	12.45	2.24	0.00	18.78	6.14	17.69	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.886242	0.066351	0.036401	0.011006	91.86	3.94	3.43	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM6234229	not_specified	F	NA	Conflict	84.93	0.12	0.00	1.03	0.25	0.72	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.896095	0.058612	0.034369	0.010924	92.01	4.07	3.20	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does