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 (2026-10-15) 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
GSM7816143	M	M	NA	Agree	0.55	6.71	0.00	25.00	7.61	20.99	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.731465	0.189099	0.044511	0.034925	88.65	7.17	3.74	863	LP2 (2026-09-30)	PASS	NonPolyA_perM 863 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM7816144	M	M	NA	Agree	0.46	6.23	0.00	24.83	7.63	21.07	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.698267	0.188703	0.046823	0.066207	85.00	10.33	4.23	1304	LP2 (2026-09-30)	PASS	NonPolyA_perM 1304 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM7816145	M	M	NA	Agree	0.56	7.16	0.00	28.06	8.46	19.96	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.637777	0.235009	0.046362	0.080852	83.94	11.27	4.31	928	LP2 (2026-09-30)	PASS	NonPolyA_perM 928 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM7816146	M	M	NA	Agree	1.02	8.67	0.00	28.12	9.72	21.55	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.667883	0.262473	0.044999	0.024645	89.01	5.86	4.64	873	LP2 (2026-09-30)	PASS	NonPolyA_perM 873 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not