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
GSM5417029	M	M	NA	Agree	0.02	3.59	0.00	14.29	11.29	57.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.884555	0.061019	0.038129	0.016297	84.83	4.53	10.26	78	LP2 (2026-09-30)	PASS	NonPolyA_perM 78 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417030	M	M	NA	Agree	0.01	2.74	0.00	13.31	9.38	53.29	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898227	0.058227	0.035633	0.007913	81.82	3.61	14.20	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417031	M	M	NA	Agree	0.00	3.75	0.00	14.12	11.97	68.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894128	0.063695	0.03642	0.005758	88.05	3.75	7.75	72	LP2 (2026-09-30)	PASS	NonPolyA_perM 72 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417032	M	M	NA	Agree	0.00	2.01	0.00	8.32	11.75	28.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.875045	0.085633	0.031607	0.007716	81.79	3.10	14.78	109	LP2 (2026-09-30)	PASS	NonPolyA_perM 109 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417033	M	M	NA	Agree	0.01	2.54	0.00	12.87	11.48	58.49	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.90006	0.05803	0.034087	0.007822	82.63	3.60	13.41	78	LP2 (2026-09-30)	PASS	NonPolyA_perM 78 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417034	M	M	NA	Agree	0.03	3.33	0.00	15.15	11.62	61.53	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894287	0.0613	0.036215	0.008198	85.64	3.80	10.18	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417035	M	M	NA	Agree	0.00	3.88	0.00	14.41	9.92	54.40	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.897026	0.060168	0.036503	0.006303	88.86	3.69	7.05	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417036	M	M	NA	Agree	0.02	4.39	0.00	14.16	11.45	51.58	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898326	0.058553	0.033787	0.009333	86.32	3.93	9.36	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417037	M	M	NA	Agree	0.02	2.84	0.00	11.30	8.06	53.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.903767	0.053792	0.034915	0.007526	84.80	3.79	11.04	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417038	M	M	NA	Agree	0.00	2.72	0.00	10.14	9.95	57.07	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.904069	0.053741	0.03482	0.00737	78.25	3.55	17.87	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417039	M	M	NA	Agree	0.00	2.54	0.00	9.32	8.35	46.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.908915	0.050133	0.033561	0.007391	82.25	3.60	13.81	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417040	M	M	NA	Agree	0.02	4.86	0.00	17.91	13.11	42.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886265	0.069182	0.034763	0.00979	78.39	3.34	17.94	71	LP2 (2026-09-30)	PASS	NonPolyA_perM 71 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417041	M	M	NA	Agree	0.00	3.80	0.00	13.72	10.49	54.79	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901215	0.056709	0.036367	0.005709	82.25	3.46	13.95	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417042	M	M	NA	Agree	0.00	3.38	0.00	14.15	9.28	52.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.902657	0.053988	0.0346	0.008755	84.88	3.82	10.95	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417043	M	M	NA	Agree	0.00	3.73	0.00	10.59	8.39	40.38	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911535	0.048752	0.034112	0.005601	86.05	3.59	10.03	52	LP2 (2026-09-30)	PASS	NonPolyA_perM 52 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417044	M	M	NA	Agree	0.00	2.81	0.00	9.29	6.58	45.97	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.906843	0.046354	0.03288	0.013923	86.99	4.52	8.12	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417045	M	M	NA	Agree	0.00	4.20	0.00	18.57	13.10	45.67	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.870084	0.080143	0.034798	0.014974	80.40	3.80	15.46	102	LP2 (2026-09-30)	PASS	NonPolyA_perM 102 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417046	M	M	NA	Agree	0.00	3.81	0.00	11.80	11.33	60.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.899693	0.056516	0.034329	0.009462	79.59	3.55	16.48	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417047	M	M	NA	Agree	0.00	2.90	0.00	14.63	10.89	53.68	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.895597	0.0598	0.035622	0.00898	83.91	3.73	11.97	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417048	M	M	NA	Agree	0.00	2.42	0.00	8.61	7.46	53.44	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.907917	0.048106	0.033851	0.010125	84.49	3.95	11.22	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417049	M	M	NA	Agree	0.02	2.78	0.00	13.20	13.24	38.36	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.853167	0.090464	0.034126	0.022244	85.09	4.52	10.00	105	LP2 (2026-09-30)	PASS	NonPolyA_perM 105 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417050	M	M	NA	Agree	0.01	2.97	0.00	9.61	8.38	50.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.906187	0.048023	0.032702	0.013089	86.82	4.15	8.69	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417051	M	M	NA	Agree	0.02	3.43	0.00	11.85	12.58	54.80	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894836	0.062102	0.03513	0.007932	88.72	3.70	7.20	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417052	M	M	NA	Agree	0.00	3.05	0.00	12.13	9.88	60.72	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898827	0.057464	0.035222	0.008487	87.86	3.85	7.90	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417053	M	M	NA	Agree	0.00	2.86	0.00	9.89	9.49	54.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.906824	0.048302	0.032863	0.012011	83.81	4.10	11.72	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417054	M	M	NA	Agree	0.00	1.96	0.00	8.35	7.00	42.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.888694	0.043999	0.030483	0.036823	80.22	6.07	13.41	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417055	M	M	NA	Agree	0.01	2.37	0.00	12.04	9.18	53.51	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.909879	0.049068	0.03269	0.008363	87.82	3.85	7.97	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417056	M	M	NA	Agree	0.02	3.58	0.00	13.34	9.51	50.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.909461	0.051753	0.034025	0.004761	81.79	3.31	14.58	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417057	M	M	NA	Agree	0.00	2.31	0.00	14.23	12.66	40.75	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865671	0.086033	0.036877	0.011419	85.33	3.67	10.58	90	LP2 (2026-09-30)	PASS	NonPolyA_perM 90 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417058	M	M	NA	Agree	0.00	3.37	0.00	11.13	7.47	45.22	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.908433	0.050547	0.031064	0.009956	84.99	3.87	10.80	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417059	M	M	NA	Agree	0.04	2.20	0.00	8.45	6.44	36.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.913893	0.046305	0.031461	0.008341	88.50	3.91	7.26	44	LP2 (2026-09-30)	PASS	NonPolyA_perM 44 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417060	M	M	NA	Agree	0.00	3.19	0.00	11.74	10.75	42.30	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.907626	0.051432	0.032405	0.008537	86.65	3.87	9.11	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417061	M	M	NA	Agree	0.00	1.60	0.00	7.21	5.16	30.51	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898459	0.043625	0.025847	0.032069	80.68	5.51	13.51	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417062	M	M	NA	Agree	0.02	2.56	0.00	11.26	8.37	46.86	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.913386	0.045433	0.032043	0.009138	82.35	3.80	13.48	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417063	M	M	NA	Agree	0.00	2.83	0.00	9.27	7.91	39.34	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911873	0.046563	0.032607	0.008956	85.45	4.00	10.18	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417064	M	M	NA	Agree	0.00	2.29	0.00	8.67	6.93	38.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.916189	0.040874	0.030224	0.012712	81.59	4.05	14.03	52	LP2 (2026-09-30)	PASS	NonPolyA_perM 52 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417065	M	M	NA	Agree	0.00	3.03	0.00	9.50	6.97	43.32	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.915127	0.043658	0.031444	0.009771	84.18	3.90	11.59	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417066	M	M	NA	Agree	0.02	3.54	0.00	11.77	7.89	42.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.906985	0.048598	0.033062	0.011355	83.85	3.95	11.90	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417067	M	M	NA	Agree	0.00	2.45	0.00	8.24	8.53	47.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912846	0.045519	0.035715	0.005919	85.89	3.82	9.94	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417068	M	M	NA	Agree	0.01	3.51	0.00	9.82	8.59	47.03	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.915089	0.045469	0.033384	0.006059	84.69	3.61	11.36	56	LP2 (2026-09-30)	PASS	NonPolyA_perM 56 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417069	M	M	NA	Agree	0.00	3.79	0.00	11.83	9.48	49.80	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.904041	0.0571	0.034818	0.004041	88.19	3.68	7.76	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417070	M	M	NA	Agree	0.03	3.02	0.00	9.44	9.37	54.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.905975	0.052214	0.03389	0.007922	82.67	3.51	13.48	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417071	M	M	NA	Agree	0.02	2.13	0.00	11.02	7.82	44.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.916364	0.046712	0.030249	0.006675	81.74	3.37	14.60	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5417072	M	M	NA	Agree	0.01	2.51	0.00	9.66	6.48	43.36	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.916347	0.044479	0.032635	0.006539	82.72	3.68	13.24	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does