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
GSM9014618	both	M	NA	Conflict	0.04	3.07	0.00	9.88	9.93	58.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.928496	0.032546	0.034644	0.004315	94.99	2.34	2.40	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9014619	both	M	NA	Conflict	0.21	8.86	0.00	36.12	15.35	79.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.884197	0.071568	0.040875	0.003361	95.21	2.28	2.22	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9014620	both	M	NA	Conflict	0.20	8.80	0.00	37.80	14.55	94.78	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.870275	0.082691	0.04312	0.003914	94.74	2.54	2.36	71	LP2 (2026-09-30)	PASS	NonPolyA_perM 71 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9014621	both	M	NA	Conflict	0.06	2.55	0.00	14.79	10.74	58.64	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.9049	0.048799	0.037248	0.009053	94.30	2.77	2.71	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9014622	both	M	NA	Conflict	0.06	7.37	0.00	34.66	15.50	89.70	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.851671	0.096077	0.047466	0.004786	94.81	2.53	2.37	86	LP2 (2026-09-30)	PASS	NonPolyA_perM 86 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9014623	both	M	NA	Conflict	0.03	6.08	0.00	30.17	15.35	73.26	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.854716	0.096315	0.043738	0.005231	95.06	2.60	2.06	69	LP2 (2026-09-30)	PASS	NonPolyA_perM 69 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does