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 (2026-10-16) 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
GSM4085516	M	M	NA	Agree	0.20	4.37	0.00	18.78	3.53	16.48	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.675752	0.22258	0.075434	0.026233	83.65	10.22	5.29	5456	LP2 (2026-09-30)	PASS	NonPolyA_perM 5456 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4085517	M	M	NA	Agree	0.12	2.95	0.00	12.28	2.71	12.11	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.660692	0.191133	0.099224	0.048951	66.08	13.19	19.74	10162	LP2 (2026-09-30)	PASS	NonPolyA_perM 10162 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4085518	M	M	NA	Agree	0.13	3.79	0.00	19.13	3.18	16.31	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.66568	0.220917	0.084161	0.029243	82.12	11.51	5.38	6028	LP2 (2026-09-30)	PASS	NonPolyA_perM 6028 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4085519	M	M	NA	Agree	0.20	3.34	0.00	18.06	2.73	15.62	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.677545	0.207248	0.089575	0.025632	81.97	11.60	5.32	6014	LP2 (2026-09-30)	PASS	NonPolyA_perM 6014 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4085520	M	M	NA	Agree	0.18	3.26	0.00	19.61	3.14	14.42	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.676862	0.212395	0.084788	0.025955	83.83	11.43	3.82	6400	LP2 (2026-09-30)	PASS	NonPolyA_perM 6400 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4085521	M	M	NA	Agree	0.10	2.43	0.00	11.92	1.97	10.53	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.643406	0.198622	0.105633	0.052339	66.39	14.85	17.65	10600	LP2 (2026-09-30)	PASS	NonPolyA_perM 10600 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4085522	M	M	NA	Agree	0.20	2.61	0.00	13.94	2.74	11.86	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.630121	0.225113	0.087846	0.056919	68.97	13.16	16.89	9102	LP2 (2026-09-30)	PASS	NonPolyA_perM 9102 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4085523	M	M	NA	Agree	0.21	2.93	0.00	13.87	2.25	12.46	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.658412	0.199174	0.098785	0.043628	68.34	13.24	17.42	9548	LP2 (2026-09-30)	PASS	NonPolyA_perM 9548 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not