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 (2026-10-20) 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
GSM1665781	M	M	NA	Agree	0.00	5.46	0.00	30.07	14.96	70.03	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865547	0.025363	0.044008	0.065083	89.73	9.10	0.92	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665782	M	M	NA	Agree	0.00	7.39	0.00	39.98	15.33	83.66	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.890211	0.024413	0.04479	0.040585	92.34	6.62	0.80	17	LP2 (2026-09-30)	PASS	NonPolyA_perM 17 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665783	M	M	NA	Agree	0.00	5.60	0.00	35.92	14.77	76.99	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.895066	0.021753	0.043313	0.039867	92.44	6.46	0.87	20	LP2 (2026-09-30)	PASS	NonPolyA_perM 20 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665784	M	M	NA	Agree	0.00	5.23	0.00	31.92	13.78	74.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.851657	0.024395	0.042082	0.081866	88.24	10.67	0.87	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665785	M	M	NA	Agree	0.00	5.70	0.00	35.00	15.60	76.91	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.887507	0.026755	0.044837	0.040901	92.17	6.67	0.92	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665786	M	M	NA	Agree	0.00	6.42	0.00	34.07	13.48	74.61	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.887131	0.025927	0.044245	0.042698	91.91	7.00	0.85	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665787	M	M	NA	Agree	0.00	6.09	0.00	32.94	13.81	71.54	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.876357	0.024427	0.043313	0.055903	90.74	8.16	0.85	24	LP2 (2026-09-30)	PASS	NonPolyA_perM 24 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665788	M	M	NA	Agree	0.00	5.40	0.00	29.23	12.60	72.25	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.864246	0.025233	0.042777	0.067744	88.92	9.41	1.42	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665789	M	M	NA	Agree	0.01	0.88	0.00	5.46	2.72	8.28	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.921903	0.035651	0.016232	0.026215	69.51	28.06	1.09	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665790	M	M	NA	Agree	0.01	0.58	0.00	3.42	1.42	4.78	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.932467	0.027138	0.011076	0.029319	64.67	33.04	0.85	49	LP2 (2026-09-30)	PASS	NonPolyA_perM 49 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665791	M	M	NA	Agree	0.01	1.08	0.00	4.86	2.31	7.46	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.923241	0.026691	0.014167	0.035901	66.03	31.42	0.97	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665792	M	M	NA	Agree	0.01	0.90	0.00	5.07	2.01	6.26	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.924695	0.029124	0.013899	0.032282	65.83	31.61	1.08	67	LP2 (2026-09-30)	PASS	NonPolyA_perM 67 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665793	M	M	NA	Agree	0.06	2.52	0.00	15.15	5.70	14.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.864108	0.078836	0.024043	0.033012	74.93	22.84	1.12	160	LP2 (2026-09-30)	PASS	NonPolyA_perM 160 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665794	M	M	NA	Agree	0.01	1.23	0.00	6.29	2.62	8.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.916193	0.039055	0.015363	0.029389	68.56	29.05	1.03	77	LP2 (2026-09-30)	PASS	NonPolyA_perM 77 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665795	M	M	NA	Agree	0.03	1.28	0.00	7.00	2.93	7.76	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901611	0.050037	0.01727	0.031082	67.97	29.52	1.12	104	LP2 (2026-09-30)	PASS	NonPolyA_perM 104 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1665796	M	M	NA	Agree	0.03	1.27	0.00	6.53	3.18	8.17	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894424	0.049276	0.017624	0.038677	68.73	28.93	1.00	104	LP2 (2026-09-30)	PASS	NonPolyA_perM 104 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does