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
GSM8012345	M	M	NA	Agree	0.02	3.11	0.00	8.98	8.82	83.22	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.878921	0.074736	0.034382	0.011961	93.02	2.84	3.95	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8012346	M	M	NA	Agree	0.03	5.22	0.00	17.23	12.34	85.31	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.863493	0.088335	0.035702	0.01247	92.91	2.80	4.08	98	LP2 (2026-09-30)	PASS	NonPolyA_perM 98 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8012347	M	M	NA	Agree	0.00	2.77	0.00	11.07	6.21	43.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.900485	0.052498	0.031325	0.015692	92.71	3.42	3.70	44	LP2 (2026-09-30)	PASS	NonPolyA_perM 44 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8012348	M	M	NA	Agree	0.02	4.11	0.00	18.61	9.57	60.88	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.867351	0.08356	0.037091	0.011999	93.69	3.13	2.98	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8012349	M	M	NA	Agree	0.13	3.95	0.00	18.02	11.71	86.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.86405	0.090118	0.036218	0.009614	93.59	2.60	3.61	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8012350	M	M	NA	Agree	0.02	4.31	0.00	19.43	9.10	60.45	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.867146	0.079174	0.034977	0.018703	93.10	3.67	3.03	64	LP2 (2026-09-30)	PASS	NonPolyA_perM 64 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does