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
GSM5345996	M	M	NA	Agree	0.00	5.95	0.00	42.56	10.63	73.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.857698	0.062571	0.041843	0.037887	72.60	4.72	22.36	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5345997	M	M	NA	Agree	0.00	6.47	0.00	40.47	9.80	81.67	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.854827	0.066301	0.043063	0.035809	81.74	4.94	13.02	96	LP2 (2026-09-30)	PASS	NonPolyA_perM 96 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5345998	M	M	NA	Agree	0.01	5.25	0.00	38.57	10.71	81.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.869357	0.073569	0.045597	0.011477	84.99	2.72	12.03	71	LP2 (2026-09-30)	PASS	NonPolyA_perM 71 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5345999	M	M	NA	Agree	0.04	6.46	0.00	42.54	11.69	85.29	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.861715	0.079456	0.043279	0.01555	82.43	2.96	14.30	79	LP2 (2026-09-30)	PASS	NonPolyA_perM 79 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346000	M	M	NA	Agree	0.00	6.06	0.00	38.74	11.97	81.17	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.828887	0.060985	0.041392	0.068736	76.99	7.99	14.73	106	LP2 (2026-09-30)	PASS	NonPolyA_perM 106 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346001	M	M	NA	Agree	0.01	5.67	0.00	43.36	11.60	78.49	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.875666	0.070098	0.043451	0.010785	83.90	2.57	13.25	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346002	M	M	NA	Agree	0.01	6.25	0.00	38.83	11.33	81.85	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883942	0.067052	0.04388	0.005126	85.91	2.13	11.68	92	LP2 (2026-09-30)	PASS	NonPolyA_perM 92 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346003	M	M	NA	Agree	0.00	6.14	0.00	44.80	10.06	94.61	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.874264	0.075756	0.04512	0.004861	86.01	2.10	11.62	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346004	M	M	NA	Agree	0.03	6.31	0.00	37.37	10.10	79.79	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.88353	0.064693	0.044586	0.007192	84.32	2.34	13.08	81	LP2 (2026-09-30)	PASS	NonPolyA_perM 81 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346005	M	M	NA	Agree	0.00	7.18	0.00	41.31	10.44	80.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.877075	0.074723	0.044113	0.00409	84.37	2.04	13.29	105	LP2 (2026-09-30)	PASS	NonPolyA_perM 105 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346006	M	M	NA	Agree	0.00	6.30	0.00	37.11	10.75	77.86	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883093	0.069057	0.044955	0.002895	84.71	1.93	13.08	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346007	M	M	NA	Agree	0.01	5.22	0.00	37.32	11.53	85.63	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.881086	0.070273	0.043552	0.005089	83.70	2.20	13.79	98	LP2 (2026-09-30)	PASS	NonPolyA_perM 98 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346008	M	M	NA	Agree	0.02	4.70	0.00	42.15	11.05	86.59	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886069	0.064079	0.044513	0.005339	84.12	2.13	13.47	66	LP2 (2026-09-30)	PASS	NonPolyA_perM 66 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346009	M	M	NA	Agree	0.00	5.90	0.00	39.67	9.85	84.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.890272	0.062004	0.043695	0.004029	83.84	2.04	13.82	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346010	M	M	NA	Agree	0.00	5.62	0.00	36.75	10.88	84.78	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883192	0.068232	0.044523	0.004053	82.54	2.05	15.12	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346011	M	M	NA	Agree	0.00	6.08	0.00	42.16	11.27	82.91	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.873895	0.078753	0.044101	0.003251	85.83	1.88	12.02	86	LP2 (2026-09-30)	PASS	NonPolyA_perM 86 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346012	M	M	NA	Agree	0.00	6.17	0.00	43.11	10.57	82.20	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.879001	0.072243	0.044286	0.004471	84.44	1.99	13.28	88	LP2 (2026-09-30)	PASS	NonPolyA_perM 88 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5346013	M	M	NA	Agree	0.03	6.61	0.00	40.80	10.61	87.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.882517	0.067627	0.043515	0.006342	80.08	2.15	17.48	67	LP2 (2026-09-30)	PASS	NonPolyA_perM 67 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does