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). For 1 sample processed before workflow 2.1, ComputedSex is the earlier curated call, kept after review where it differed from the rule above.
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
GSM8398266	not_specified	Undetermined	NA	Conflict	341.62	5.79	0.00	19.69	8.58	29.21	NONE	POLYA	0.79873	0.154205	0.046821	0.000244	93.42	1.92	4.48	205	LP2 (2026-09-30)	PASS	NonPolyA_perM 205 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8398267	not_specified	M	NA	Conflict	0.02	26.95	0.00	81.67	39.53	111.15	NONE	POLYA	0.795503	0.157116	0.047156	0.000225	93.76	1.92	4.14	216	LP2 (2026-09-30)	PASS	NonPolyA_perM 216 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8398268	not_specified	Undetermined	NA	Conflict	97.85	17.95	0.00	55.83	25.95	86.46	NONE	POLYA	0.800628	0.150668	0.048521	0.000183	93.46	1.98	4.39	206	LP2 (2026-09-30)	PASS	NonPolyA_perM 206 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does