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 (2026-10-22) 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
GSM4975759	M	M	NA	Agree	0.00	16.53	0.00	34.08	16.94	43.44	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.826266	0.08465	0.058921	0.030163	64.40	3.55	31.66	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4975760	M	M	NA	Agree	0.00	19.08	0.00	40.82	18.85	39.87	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865045	0.067225	0.057638	0.010092	68.17	2.06	29.12	78	LP2 (2026-09-30)	PASS	NonPolyA_perM 78 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4975761	M	M	NA	Agree	0.00	21.46	0.00	38.31	18.19	51.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.870222	0.066096	0.056346	0.007337	67.70	1.82	30.01	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4975762	M	M	NA	Agree	0.06	17.57	0.00	37.99	22.81	39.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.870398	0.068759	0.056417	0.004425	67.79	1.55	30.22	68	LP2 (2026-09-30)	PASS	NonPolyA_perM 68 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4975763	M	M	NA	Agree	0.03	20.87	0.00	40.04	18.43	41.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.867589	0.070735	0.056333	0.005342	63.33	1.53	34.61	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4975764	M	M	NA	Agree	0.00	20.92	0.00	34.38	23.58	47.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.844075	0.081793	0.056632	0.0175	65.90	2.55	30.91	69	LP2 (2026-09-30)	PASS	NonPolyA_perM 69 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does