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). For 1 sample processed before workflow 2.1, ComputedSex is the earlier curated call, kept after review where it differed from the rule above.
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
GSM7656816	M	F	NA	Conflict	8.40	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.943972	0.018906	0.033078	0.004044	94.02	2.68	3.13	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656817	M	F	NA	Conflict	23.53	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.948925	0.020699	0.027582	0.002794	92.84	2.17	4.85	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656818	M	F	NA	Conflict	31.56	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.922686	0.03371	0.04015	0.003455	93.91	2.90	3.05	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656819	M	F	NA	Conflict	10.92	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.940802	0.022496	0.028246	0.008457	93.41	2.97	3.53	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656820	M	F	NA	Conflict	21.36	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.949602	0.0207	0.027904	0.001794	94.28	1.93	3.70	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656821	M	Undetermined	NA	Conflict	0.00	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.946739	0.019888	0.030711	0.002662	94.42	2.48	2.95	28	LP2 (2026-09-30)	PASS	NonPolyA_perM 28 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656822	M	F	NA	Conflict	25.11	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.937715	0.024934	0.028239	0.009113	93.84	2.95	3.05	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656823	M	F	NA	Conflict	56.43	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.920905	0.044273	0.032741	0.002081	94.38	2.31	3.18	57	LP2 (2026-09-30)	PASS	NonPolyA_perM 57 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656824	M	F	NA	Conflict	14.33	0.00	0.00	0.00	0.00	0.05	NONE	POLYA	0.94851	0.017445	0.029756	0.00429	93.64	2.62	3.56	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656825	M	F	NA	Conflict	152.89	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.876701	0.081928	0.039274	0.002097	94.54	2.33	2.91	102	LP2 (2026-09-30)	PASS	NonPolyA_perM 102 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656826	M	Undetermined	NA	Conflict	1.57	0.17	0.00	0.00	0.00	0.00	NONE	POLYA	0.966484	0.009958	0.003269	0.020289	92.74	3.04	4.21	2	LP2 (2026-09-30)	PASS	NonPolyA_perM 2 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656827	M	Undetermined	NA	Conflict	0.71	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.99141	0.005806	0.00109	0.001694	93.85	0.99	5.15	1	LP2 (2026-09-30)	PASS	NonPolyA_perM 1 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656828	M	Undetermined	NA	Conflict	1.46	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.986431	0.008408	0.002689	0.002472	93.11	1.17	5.71	4	LP2 (2026-09-30)	PASS	NonPolyA_perM 4 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656829	M	Undetermined	NA	Conflict	2.34	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.98493	0.009857	0.003094	0.002119	95.56	1.28	3.14	8	LP2 (2026-09-30)	PASS	NonPolyA_perM 8 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656830	M	Undetermined	NA	Conflict	1.32	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.979599	0.009271	0.002952	0.008179	93.25	1.82	4.92	5	LP2 (2026-09-30)	PASS	NonPolyA_perM 5 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656831	M	Undetermined	NA	Conflict	1.73	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.987863	0.006575	0.002395	0.003167	94.36	1.02	4.60	3	LP2 (2026-09-30)	PASS	NonPolyA_perM 3 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656832	M	Undetermined	NA	Conflict	0.00	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.970252	0.006972	0.002118	0.020658	93.74	3.01	3.23	3	LP2 (2026-09-30)	PASS	NonPolyA_perM 3 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656833	M	Undetermined	NA	Conflict	0.43	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.990267	0.005955	0.00109	0.002688	95.01	1.25	3.74	2	LP2 (2026-09-30)	PASS	NonPolyA_perM 2 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656834	M	Undetermined	NA	Conflict	1.34	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.980013	0.00871	0.003628	0.007649	92.76	1.83	5.39	7	LP2 (2026-09-30)	PASS	NonPolyA_perM 7 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656835	M	Undetermined	NA	Conflict	2.19	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.966429	0.007243	0.002537	0.023791	92.06	3.30	4.63	5	LP2 (2026-09-30)	PASS	NonPolyA_perM 5 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656836	M	Undetermined	NA	Conflict	3.83	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.97006	0.015463	0.004378	0.0101	92.54	2.22	5.21	7	LP2 (2026-09-30)	PASS	NonPolyA_perM 7 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7656837	M	Undetermined	NA	Conflict	1.36	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.992263	0.004686	0.001132	0.001919	95.45	0.89	3.65	2	LP2 (2026-09-30)	PASS	NonPolyA_perM 2 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does