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
GSM7040056	M	M	NA	Agree	0.00	5.14	0.00	13.85	7.97	75.26	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.941357	0.021895	0.031228	0.00552	92.27	2.92	4.70	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040057	M	M	NA	Agree	0.00	3.57	0.00	15.06	8.00	78.28	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.929526	0.027307	0.037414	0.005753	91.17	3.25	5.44	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040058	M	M	NA	Agree	0.00	4.76	0.00	16.68	8.44	81.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.926336	0.031457	0.038216	0.003991	92.34	3.18	4.31	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040059	M	M	NA	Agree	0.00	6.02	0.00	19.07	7.00	84.66	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.926687	0.029377	0.0352	0.008736	90.02	3.38	6.47	45	LP2 (2026-09-30)	PASS	NonPolyA_perM 45 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040060	M	M	NA	Agree	0.00	3.55	0.00	14.31	6.78	79.36	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.930515	0.028103	0.040315	0.001067	89.53	2.75	7.56	44	LP2 (2026-09-30)	PASS	NonPolyA_perM 44 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040061	M	M	NA	Agree	0.00	5.30	0.00	19.21	8.91	74.57	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.927174	0.034964	0.033731	0.004132	92.19	3.00	4.64	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040062	M	M	NA	Agree	0.00	4.31	0.00	15.18	7.05	74.31	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.941163	0.020216	0.029958	0.008662	91.04	3.42	5.42	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040063	M	M	NA	Agree	0.01	4.53	0.00	16.85	8.84	78.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.942074	0.022925	0.031271	0.00373	92.17	3.00	4.71	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040064	M	M	NA	Agree	0.00	4.64	0.00	14.03	6.92	77.49	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.943028	0.021397	0.033697	0.001879	90.58	2.81	6.49	35	LP2 (2026-09-30)	PASS	NonPolyA_perM 35 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040065	M	M	NA	Agree	0.00	5.69	0.00	23.06	9.46	73.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.923907	0.040013	0.031141	0.004939	92.50	3.21	4.15	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040066	M	M	NA	Agree	0.00	4.38	0.00	16.00	7.24	79.85	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.940645	0.022887	0.030316	0.006152	91.65	3.23	5.03	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040067	M	M	NA	Agree	0.00	5.88	0.00	20.59	10.98	82.72	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.939883	0.026117	0.03237	0.00163	92.39	2.54	4.96	34	LP2 (2026-09-30)	PASS	NonPolyA_perM 34 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040068	M	M	NA	Agree	0.00	5.27	0.00	17.23	10.57	73.15	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.928915	0.036061	0.033029	0.001994	92.34	2.75	4.80	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040069	M	M	NA	Agree	0.00	2.83	0.00	9.68	9.01	63.82	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.923754	0.030294	0.043809	0.002143	82.46	2.77	14.63	68	LP2 (2026-09-30)	PASS	NonPolyA_perM 68 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040070	M	M	NA	Agree	0.00	4.53	0.00	15.65	8.12	82.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.938378	0.021651	0.03357	0.006401	88.31	3.02	8.56	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040071	M	M	NA	Agree	0.00	4.63	0.00	12.60	10.12	72.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.930857	0.02763	0.040219	0.001295	86.98	2.56	10.33	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040072	M	M	NA	Agree	0.00	5.08	0.00	15.02	8.71	68.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.942181	0.021292	0.031723	0.004804	89.83	2.96	7.10	48	LP2 (2026-09-30)	PASS	NonPolyA_perM 48 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7040073	M	M	NA	Agree	0.00	4.94	0.00	23.59	11.38	74.08	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.914	0.045676	0.035234	0.00509	92.76	3.06	4.04	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does