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
GSM8416795	M	M	NA	Agree	0.00	6.07	0.00	30.09	11.77	40.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.942613	0.038532	0.0186	0.000256	76.33	1.00	22.55	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8416796	M	M	NA	Agree	0.00	6.39	0.00	34.68	6.79	41.83	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.945604	0.036912	0.0172	0.000284	77.86	1.04	20.97	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8416797	M	M	NA	Agree	0.00	3.95	0.00	18.93	9.72	37.21	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.92985	0.05234	0.017461	0.000348	74.19	1.05	24.64	39	LP2 (2026-09-30)	PASS	NonPolyA_perM 39 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8416798	M	M	NA	Agree	0.00	4.29	0.00	20.79	8.49	36.26	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.954337	0.030258	0.014967	0.000438	79.26	0.90	19.73	22	LP2 (2026-09-30)	PASS	NonPolyA_perM 22 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8416799	M	M	NA	Agree	0.00	5.41	0.00	28.52	7.90	40.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.95921	0.027326	0.01303	0.000433	80.30	0.74	18.82	23	LP2 (2026-09-30)	PASS	NonPolyA_perM 23 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8416800	M	M	NA	Agree	0.00	5.77	0.00	27.55	7.90	42.72	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.947329	0.035493	0.016805	0.000373	79.00	0.96	19.92	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does