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
GSM4075460	F	F	NA	Agree	216.78	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.514577	0.423926	0.059729	0.001767	93.01	1.81	4.56	543	LP2 (2026-09-30)	PASS	NonPolyA_perM 543 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM4075461	F	F	NA	Agree	216.98	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.51223	0.427701	0.058618	0.001452	92.69	1.70	4.98	490	LP2 (2026-09-30)	PASS	NonPolyA_perM 490 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM4075462	F	F	NA	Agree	224.21	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.506312	0.432153	0.060139	0.001396	93.01	1.76	4.57	501	LP2 (2026-09-30)	PASS	NonPolyA_perM 501 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM4075463	F	F	NA	Agree	250.67	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.502481	0.437597	0.058051	0.001871	93.42	1.75	4.21	429	LP2 (2026-09-30)	PASS	NonPolyA_perM 429 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM4075464	F	F	NA	Agree	247.16	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.515247	0.425026	0.057914	0.001813	93.71	1.76	3.93	535	LP2 (2026-09-30)	PASS	NonPolyA_perM 535 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM4075465	F	F	NA	Agree	280.12	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.506424	0.433954	0.057862	0.001761	94.07	1.76	3.58	489	LP2 (2026-09-30)	PASS	NonPolyA_perM 489 is between 350 and 700, outside the range of every calibration study; check the study methods