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 (2026-10-22) 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
GSM5934162	M	M	NA	Agree	0.05	0.21	0.00	0.46	1.57	22.85	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.95799	0.01453	0.024635	0.002845	90.45	2.40	6.87	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934163	M	M	NA	Agree	0.04	0.14	0.00	0.33	1.91	23.35	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.958659	0.014208	0.024161	0.002972	91.48	2.35	5.90	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934164	M	M	NA	Agree	0.11	0.35	0.00	1.37	2.80	45.89	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.952046	0.018739	0.026345	0.002871	90.93	2.48	6.31	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934165	M	M	NA	Agree	0.14	1.25	0.00	4.56	4.86	59.94	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.928069	0.036677	0.027287	0.007968	90.56	2.82	6.42	103	LP2 (2026-09-30)	PASS	NonPolyA_perM 103 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934166	M	M	NA	Agree	0.06	0.36	0.00	1.25	2.14	46.98	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.93889	0.028066	0.028695	0.004348	89.86	2.84	7.05	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934167	M	M	NA	Agree	0.11	0.61	0.00	3.38	2.86	73.44	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.940352	0.028429	0.026011	0.005209	89.54	2.81	7.20	66	LP2 (2026-09-30)	PASS	NonPolyA_perM 66 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934168	M	M	NA	Agree	0.10	0.74	0.00	3.78	4.89	59.85	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.939677	0.030243	0.026622	0.003458	90.60	2.59	6.61	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934169	M	M	NA	Agree	0.34	2.24	0.00	20.25	16.13	61.21	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.940472	0.031954	0.025377	0.002197	89.40	2.04	8.16	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934170	M	F	NA	Conflict	29.74	0.00	0.00	0.04	0.07	0.57	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.9528	0.02275	0.022599	0.001851	90.01	2.03	7.58	21	LP2 (2026-09-30)	PASS	NonPolyA_perM 21 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934171	M	M	NA	Agree	0.09	0.18	0.00	1.23	3.56	38.25	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.954273	0.016968	0.025032	0.003728	90.64	2.47	6.66	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5934172	M	M	NA	Agree	0.06	0.27	0.00	1.00	1.96	39.45	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.952764	0.019704	0.02464	0.002892	91.11	2.60	6.07	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does