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
GSM5176712	M	M	NA	Agree	0.86	5.71	0.00	7.60	2.70	28.77	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.625052	0.26569	0.102431	0.006827	90.89	3.63	3.48	484	LP2 (2026-09-30)	PASS	NonPolyA_perM 484 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM5176713	M	M	NA	Agree	0.88	5.44	0.00	8.32	2.47	28.04	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.591832	0.294264	0.10884	0.005064	90.40	3.46	3.89	507	LP2 (2026-09-30)	PASS	NonPolyA_perM 507 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM5176714	M	M	NA	Agree	0.96	6.95	0.00	8.37	2.60	33.50	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.59907	0.282612	0.105701	0.012617	90.42	4.14	3.36	475	LP2 (2026-09-30)	PASS	NonPolyA_perM 475 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM5176715	M	M	NA	Agree	0.79	6.71	0.00	8.39	2.46	34.62	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.6024	0.284565	0.107093	0.005942	90.77	3.44	3.90	443	LP2 (2026-09-30)	PASS	NonPolyA_perM 443 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM5176716	M	M	NA	Agree	0.71	5.99	0.00	8.28	3.01	29.10	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.617502	0.270495	0.10273	0.009274	89.77	3.82	4.12	557	LP2 (2026-09-30)	PASS	NonPolyA_perM 557 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM5176717	M	M	NA	Agree	0.96	6.76	0.00	7.99	2.82	27.92	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.571474	0.308599	0.114093	0.005834	90.26	3.50	4.05	475	LP2 (2026-09-30)	PASS	NonPolyA_perM 475 is between 350 and 700, outside the range of every calibration study; check the study methods