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
GSM4141779	M	M	NA	Agree	0.39	2.60	0.00	5.49	1.42	15.69	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.668761	0.172347	0.099228	0.059664	74.26	9.60	14.14	2875	LP2 (2026-09-30)	PASS	NonPolyA_perM 2875 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141780	M	M	NA	Agree	0.31	2.72	0.00	5.56	1.95	11.21	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.659288	0.179704	0.099729	0.061279	73.72	9.66	14.58	2803	LP2 (2026-09-30)	PASS	NonPolyA_perM 2803 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141781	M	M	NA	Agree	0.28	2.39	0.00	4.63	1.31	14.70	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.66355	0.178205	0.099486	0.058759	74.22	9.35	14.29	2736	LP2 (2026-09-30)	PASS	NonPolyA_perM 2736 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141782	M	M	NA	Agree	0.27	2.52	0.00	5.26	1.20	12.79	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.686105	0.160875	0.097136	0.055883	74.12	9.36	14.47	3083	LP2 (2026-09-30)	PASS	NonPolyA_perM 3083 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141783	M	M	NA	Agree	0.46	2.39	0.00	4.90	1.25	13.34	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.66435	0.17406	0.096486	0.065103	74.21	9.95	13.74	2876	LP2 (2026-09-30)	PASS	NonPolyA_perM 2876 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141784	M	M	NA	Agree	0.25	2.48	0.00	4.79	1.18	15.13	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.718602	0.132955	0.089715	0.058728	74.00	9.61	14.23	2782	LP2 (2026-09-30)	PASS	NonPolyA_perM 2782 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141785	M	M	NA	Agree	0.37	3.17	0.00	5.90	1.31	14.58	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.689286	0.155907	0.095466	0.059341	74.59	9.53	13.74	2666	LP2 (2026-09-30)	PASS	NonPolyA_perM 2666 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141786	M	M	NA	Agree	0.34	2.47	0.00	5.03	1.30	14.61	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.685074	0.160611	0.094519	0.059796	73.97	9.49	14.47	2774	LP2 (2026-09-30)	PASS	NonPolyA_perM 2774 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4141787	M	M	NA	Agree	0.44	3.20	0.00	5.08	1.32	16.54	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.665249	0.188134	0.097083	0.049534	73.97	8.24	15.89	2507	LP2 (2026-09-30)	PASS	NonPolyA_perM 2507 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not