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
GSM4125368	M	M	NA	Agree	0.00	2.85	0.00	13.03	2.33	13.37	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.704561	0.158289	0.137095	0.000054	83.20	14.66	1.11	9159	LP2 (2026-09-30)	PASS	NonPolyA_perM 9159 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4125369	M	M	NA	Agree	0.01	2.19	0.00	9.22	1.44	8.52	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.715862	0.124541	0.15954	0.000057	78.74	19.09	1.12	13449	LP2 (2026-09-30)	PASS	NonPolyA_perM 13449 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4125370	M	M	NA	Agree	0.00	1.97	0.00	11.67	2.00	13.07	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.732951	0.113322	0.153629	0.000098	81.44	16.16	1.27	10815	LP2 (2026-09-30)	PASS	NonPolyA_perM 10815 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4125371	M	M	NA	Agree	0.00	2.00	0.00	12.61	2.43	14.53	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.753534	0.101758	0.144679	0.000029	84.05	14.10	0.97	9602	LP2 (2026-09-30)	PASS	NonPolyA_perM 9602 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4125372	M	M	NA	Agree	0.00	2.08	0.00	13.51	2.76	15.31	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.735312	0.118978	0.145672	0.000038	84.05	13.92	1.09	10764	LP2 (2026-09-30)	PASS	NonPolyA_perM 10764 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4125373	M	M	NA	Agree	0.00	1.85	0.00	12.80	2.49	14.83	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.74688	0.098468	0.154618	0.000035	82.61	15.36	1.02	10630	LP2 (2026-09-30)	PASS	NonPolyA_perM 10630 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not