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
GSM3450009	M	M	NA	Agree	0.02	3.22	0.00	14.01	6.43	11.08	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.323929	0.263071	0.034833	0.378167	52.99	37.00	9.14	2388	LP2 (2026-09-30)	PASS	NonPolyA_perM 2388 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3450010	M	M	NA	Agree	0.00	4.70	0.00	22.20	8.78	17.95	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.394663	0.365359	0.042972	0.197006	68.18	20.39	10.60	2327	LP2 (2026-09-30)	PASS	NonPolyA_perM 2327 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3450011	M	M	NA	Agree	0.03	5.24	0.00	17.81	8.65	16.40	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.36194	0.311395	0.042574	0.28409	60.54	27.76	10.77	2155	LP2 (2026-09-30)	PASS	NonPolyA_perM 2155 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3450012	M	M	NA	Agree	0.00	5.75	0.00	21.46	11.42	18.35	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.365123	0.315147	0.042657	0.277074	62.03	27.68	9.59	1998	LP2 (2026-09-30)	PASS	NonPolyA_perM 1998 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3450013	M	M	NA	Agree	0.05	7.20	0.00	18.04	12.47	18.10	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.37514	0.370027	0.048019	0.206814	67.34	21.21	10.53	2587	LP2 (2026-09-30)	PASS	NonPolyA_perM 2587 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3450014	M	M	NA	Agree	0.04	5.85	0.00	20.27	9.25	13.69	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.383178	0.372677	0.0488	0.195345	67.74	20.35	10.99	2584	LP2 (2026-09-30)	PASS	NonPolyA_perM 2584 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3450015	M	M	NA	Agree	0.03	7.48	0.00	20.28	11.78	17.60	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.398261	0.384192	0.048967	0.16858	71.12	17.64	10.34	2319	LP2 (2026-09-30)	PASS	NonPolyA_perM 2319 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM3450016	M	M	NA	Agree	0.02	8.35	0.00	19.72	12.67	19.30	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.381196	0.388084	0.049187	0.181533	68.07	18.82	12.05	2825	LP2 (2026-09-30)	PASS	NonPolyA_perM 2825 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not