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 (2026-10-20) 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
GSM3869913	M	M	NA	Agree	0.01	7.26	0.00	55.10	15.57	90.32	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.867182	0.08327	0.044314	0.005234	96.31	2.61	0.71	65	LP2 (2026-09-30)	PASS	NonPolyA_perM 65 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869914	M	M	NA	Agree	0.01	6.69	0.00	53.27	14.92	87.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.848234	0.102885	0.045078	0.003802	96.23	2.48	0.62	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869915	M	M	NA	Agree	0.00	6.67	0.00	50.76	16.00	89.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.853615	0.097124	0.045331	0.003931	96.30	2.48	0.82	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869916	M	M	NA	Agree	0.02	7.32	0.00	47.20	14.74	88.57	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.872668	0.082541	0.042992	0.001799	96.50	2.42	0.70	77	LP2 (2026-09-30)	PASS	NonPolyA_perM 77 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869917	M	M	NA	Agree	0.01	6.13	0.00	43.85	12.46	86.29	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.88446	0.072624	0.040323	0.002593	96.49	2.45	0.68	65	LP2 (2026-09-30)	PASS	NonPolyA_perM 65 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869918	M	M	NA	Agree	0.00	6.34	0.00	50.98	15.25	82.69	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.852928	0.093522	0.04372	0.009829	95.79	3.08	0.58	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869919	M	M	NA	Agree	0.00	6.04	0.00	47.10	13.73	82.33	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.869991	0.084781	0.043649	0.001579	96.69	2.28	0.59	68	LP2 (2026-09-30)	PASS	NonPolyA_perM 68 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869920	M	M	NA	Agree	0.00	6.66	0.00	45.85	16.77	90.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.861122	0.092333	0.044412	0.002133	96.65	2.32	0.67	72	LP2 (2026-09-30)	PASS	NonPolyA_perM 72 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869921	M	M	NA	Agree	0.00	7.21	0.00	53.26	15.85	77.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.84895	0.097695	0.045895	0.00746	95.94	2.82	0.66	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869922	M	M	NA	Agree	0.00	6.55	0.00	50.98	15.53	81.82	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865657	0.087093	0.043973	0.003277	96.58	2.39	0.66	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3869923	M	M	NA	Agree	0.00	6.54	0.00	50.00	16.18	83.97	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.851128	0.101873	0.044946	0.002053	96.43	2.35	0.82	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does