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 (2026-10-20) 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
GSM2143132	not_specified	F	NA	Conflict	88.43	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.900392	0.065247	0.032876	0.001485	89.00	3.12	7.50	150	LP2 (2026-09-30)	PASS	NonPolyA_perM 150 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2143133	not_specified	F	NA	Conflict	68.37	0.05	0.00	0.03	0.09	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.91052	0.056879	0.030466	0.002135	89.33	2.88	7.37	127	LP2 (2026-09-30)	PASS	NonPolyA_perM 127 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2143134	not_specified	F	NA	Conflict	101.00	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898081	0.069452	0.031462	0.001005	89.42	2.76	7.41	131	LP2 (2026-09-30)	PASS	NonPolyA_perM 131 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2143135	not_specified	F	NA	Conflict	90.65	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.891798	0.073398	0.031775	0.003029	89.15	3.13	7.31	177	LP2 (2026-09-30)	PASS	NonPolyA_perM 177 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2143136	not_specified	F	NA	Conflict	165.20	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886658	0.079439	0.032913	0.00099	87.39	2.65	9.58	103	LP2 (2026-09-30)	PASS	NonPolyA_perM 103 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2143137	not_specified	F	NA	Conflict	141.76	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.887861	0.076909	0.03403	0.0012	81.39	2.61	15.63	101	LP2 (2026-09-30)	PASS	NonPolyA_perM 101 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2143138	not_specified	F	NA	Conflict	113.20	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894329	0.069995	0.034085	0.001591	80.66	2.59	16.40	112	LP2 (2026-09-30)	PASS	NonPolyA_perM 112 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM2143139	not_specified	F	NA	Conflict	90.24	0.00	0.00	0.00	0.00	0.08	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912278	0.055019	0.031322	0.001381	89.76	2.94	6.96	104	LP2 (2026-09-30)	PASS	NonPolyA_perM 104 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does