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). 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
GSM4154909	M	M	NA	Agree	0.35	9.28	0.00	58.85	23.62	69.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.792075	0.141423	0.048474	0.018028	93.14	6.31	0.21	132	LP2 (2026-09-30)	PASS	NonPolyA_perM 132 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154910	M	M	NA	Agree	0.15	9.68	0.00	51.42	21.13	49.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.82055	0.104688	0.040208	0.034554	93.02	6.13	0.42	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154911	M	M	NA	Agree	0.24	8.95	0.00	45.99	23.90	45.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.811721	0.120471	0.038637	0.029171	95.10	4.52	0.20	76	LP2 (2026-09-30)	PASS	NonPolyA_perM 76 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154912	F	F	NA	Agree	255.07	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.812693	0.136487	0.045115	0.005705	94.08	4.52	0.75	87	LP2 (2026-09-30)	PASS	NonPolyA_perM 87 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154913	F	F	NA	Agree	179.65	0.00	0.00	0.04	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.705284	0.173263	0.117684	0.003768	88.04	4.61	5.33	167	LP2 (2026-09-30)	PASS	NonPolyA_perM 167 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154914	F	F	NA	Agree	245.48	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.804856	0.13947	0.037801	0.017873	94.74	4.49	0.46	96	LP2 (2026-09-30)	PASS	NonPolyA_perM 96 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154915	F	F	NA	Agree	188.08	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.789326	0.104035	0.034492	0.072147	91.04	8.47	0.16	69	LP2 (2026-09-30)	PASS	NonPolyA_perM 69 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154916	M	M	NA	Agree	0.34	8.30	0.00	46.83	24.53	68.36	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.788333	0.137062	0.044259	0.030345	94.03	5.47	0.20	149	LP2 (2026-09-30)	PASS	NonPolyA_perM 149 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154917	M	M	NA	Agree	0.22	6.34	0.00	34.84	14.68	42.36	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.835426	0.06699	0.031402	0.066181	87.70	11.67	0.16	121	LP2 (2026-09-30)	PASS	NonPolyA_perM 121 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154918	F	F	NA	Agree	136.28	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.887867	0.069535	0.036061	0.006538	95.03	4.06	0.49	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154919	M	M	NA	Agree	0.10	6.82	0.00	37.68	15.12	45.01	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.834398	0.086691	0.037969	0.040942	89.79	9.06	0.67	67	LP2 (2026-09-30)	PASS	NonPolyA_perM 67 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154920	M	M	NA	Agree	0.29	6.46	0.00	44.97	21.06	42.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.845181	0.104534	0.046485	0.0038	91.29	6.44	1.29	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154921	F	F	NA	Agree	7.10	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.920598	0.029198	0.032317	0.017887	85.79	13.50	0.20	64	LP2 (2026-09-30)	PASS	NonPolyA_perM 64 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154922	F	F	NA	Agree	149.13	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.822153	0.093032	0.039105	0.04571	91.33	8.19	0.21	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154923	F	F	NA	Agree	133.02	0.00	0.00	0.02	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.771391	0.082682	0.039711	0.106215	90.69	8.90	0.17	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154924	F	F	NA	Agree	176.21	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.794416	0.106879	0.034834	0.063871	91.94	7.69	0.17	90	LP2 (2026-09-30)	PASS	NonPolyA_perM 90 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154925	F	F	NA	Agree	169.03	0.00	0.00	0.00	0.00	0.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.812251	0.079024	0.03279	0.075935	91.44	8.13	0.16	83	LP2 (2026-09-30)	PASS	NonPolyA_perM 83 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154926	F	F	NA	Agree	157.79	0.00	0.00	0.02	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.804049	0.093103	0.035562	0.067287	91.77	7.85	0.19	57	LP2 (2026-09-30)	PASS	NonPolyA_perM 57 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154927	M	M	NA	Agree	0.19	8.09	0.00	43.17	22.59	53.41	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.843821	0.089536	0.038859	0.027783	92.50	6.37	0.60	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154928	M	M	NA	Agree	0.15	10.18	0.00	54.31	28.64	61.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.83836	0.096056	0.037791	0.027792	93.39	6.10	0.17	96	LP2 (2026-09-30)	PASS	NonPolyA_perM 96 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154929	M	M	NA	Agree	0.17	8.53	0.00	48.31	21.91	51.45	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.782574	0.10354	0.045429	0.068457	91.07	7.84	0.63	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154930	M	M	NA	Agree	0.18	8.02	0.00	52.06	24.54	61.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.83625	0.091892	0.03999	0.031869	93.35	5.66	0.57	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154931	F	F	NA	Agree	175.82	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.803197	0.118819	0.042187	0.035797	92.72	6.73	0.22	132	LP2 (2026-09-30)	PASS	NonPolyA_perM 132 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154932	F	F	NA	Agree	81.76	0.00	0.00	0.00	1.43	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.228064	0.327108	0.442538	0.002289	92.59	4.48	1.75	314	LP2 (2026-09-30)	PASS	NonPolyA_perM 314 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154933	F	F	NA	Agree	154.35	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.772624	0.122159	0.043695	0.061521	91.74	7.72	0.24	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154934	F	F	NA	Agree	15.75	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.88335	0.061721	0.044944	0.009986	88.88	10.18	0.29	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154935	M	M	NA	Agree	0.44	5.06	0.00	22.58	15.90	52.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.838232	0.080372	0.040736	0.040661	91.70	7.14	0.69	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154936	M	M	NA	Agree	0.77	8.44	0.00	45.04	25.62	60.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.791492	0.122666	0.065817	0.020026	92.48	4.96	1.70	98	LP2 (2026-09-30)	PASS	NonPolyA_perM 98 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154937	M	M	NA	Agree	0.29	8.33	0.00	45.73	23.05	57.71	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.81633	0.107731	0.041111	0.034828	92.79	6.70	0.23	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154938	M	M	NA	Agree	0.01	3.60	0.00	22.96	4.73	56.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.826373	0.110235	0.037738	0.025653	90.23	8.73	0.60	124	LP2 (2026-09-30)	PASS	NonPolyA_perM 124 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154939	M	M	NA	Agree	0.07	7.20	0.00	53.18	9.09	51.96	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.815183	0.11967	0.03238	0.032767	92.56	6.89	0.31	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154940	M	M	NA	Agree	0.07	8.57	0.00	44.07	6.30	53.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.775184	0.104785	0.032231	0.0878	90.43	8.69	0.53	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154941	F	F	NA	Agree	263.85	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.781036	0.161266	0.039711	0.017987	94.45	4.56	0.59	107	LP2 (2026-09-30)	PASS	NonPolyA_perM 107 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154942	F	F	NA	Agree	114.15	0.02	0.00	0.02	0.00	0.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.827264	0.112939	0.043505	0.016293	91.16	6.53	1.53	118	LP2 (2026-09-30)	PASS	NonPolyA_perM 118 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154943	F	F	NA	Agree	252.08	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.811439	0.112954	0.036699	0.038908	93.63	5.88	0.18	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154944	F	F	NA	Agree	176.14	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.804498	0.1132	0.032952	0.04935	92.90	6.52	0.33	65	LP2 (2026-09-30)	PASS	NonPolyA_perM 65 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154945	M	M	NA	Agree	0.11	4.84	0.00	24.91	7.14	55.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.786622	0.107466	0.038341	0.067571	89.84	8.93	0.82	78	LP2 (2026-09-30)	PASS	NonPolyA_perM 78 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154946	M	M	NA	Agree	0.44	8.82	0.00	62.73	10.12	61.36	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.8101	0.124555	0.035675	0.02967	93.35	6.11	0.31	83	LP2 (2026-09-30)	PASS	NonPolyA_perM 83 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154947	F	F	NA	Agree	88.31	0.04	0.00	0.15	0.02	0.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.879759	0.068716	0.032058	0.019467	92.18	6.75	0.61	67	LP2 (2026-09-30)	PASS	NonPolyA_perM 67 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154948	M	M	NA	Agree	0.11	6.57	0.00	42.02	10.58	49.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.811886	0.096581	0.034694	0.056838	90.69	8.55	0.35	77	LP2 (2026-09-30)	PASS	NonPolyA_perM 77 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154949	M	M	NA	Agree	0.07	3.62	0.00	21.90	3.07	36.67	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.86816	0.074407	0.054944	0.002489	90.32	7.08	1.80	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154950	F	F	NA	Agree	126.18	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.840478	0.092183	0.031634	0.035705	91.52	7.70	0.49	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154951	F	F	NA	Agree	198.38	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.83977	0.110189	0.03548	0.014561	93.09	6.07	0.49	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154952	F	F	NA	Agree	182.84	0.00	0.00	0.06	0.02	0.16	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.769053	0.129392	0.033168	0.068388	90.27	9.12	0.38	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154953	F	F	NA	Agree	114.33	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.817403	0.121629	0.058707	0.002262	90.96	4.93	2.68	79	LP2 (2026-09-30)	PASS	NonPolyA_perM 79 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154954	F	F	NA	Agree	174.15	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.824627	0.104989	0.037698	0.032686	92.74	6.27	0.61	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154955	F	F	NA	Agree	127.37	0.00	0.00	0.00	0.00	0.06	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.826267	0.094129	0.036083	0.043521	90.84	8.01	0.73	77	LP2 (2026-09-30)	PASS	NonPolyA_perM 77 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154956	M	M	NA	Agree	0.03	7.90	0.00	59.07	7.74	62.64	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.80891	0.099911	0.033449	0.05773	91.59	7.42	0.67	76	LP2 (2026-09-30)	PASS	NonPolyA_perM 76 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154957	M	M	NA	Agree	0.10	7.16	0.00	44.83	6.27	53.57	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.849466	0.095094	0.03467	0.020771	92.81	6.17	0.66	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154958	M	M	NA	Agree	0.05	7.22	0.00	51.41	6.51	61.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.851663	0.095497	0.035364	0.017476	93.28	5.78	0.57	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154959	F	F	NA	Agree	223.33	0.24	0.00	3.63	0.15	3.76	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.758081	0.171779	0.053777	0.016362	92.14	5.60	1.40	141	LP2 (2026-09-30)	PASS	NonPolyA_perM 141 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154960	F	F	NA	Agree	112.87	0.13	0.00	0.73	0.32	0.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.807587	0.118341	0.043511	0.03056	89.98	7.81	1.34	96	LP2 (2026-09-30)	PASS	NonPolyA_perM 96 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154961	M	M	NA	Agree	0.63	4.00	0.00	19.10	6.82	38.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.767261	0.135667	0.076033	0.021039	87.31	7.49	3.51	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4154962	M	M	NA	Agree	0.30	3.70	0.00	18.49	7.38	27.01	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.774033	0.127387	0.074582	0.023998	89.91	7.83	1.52	103	LP2 (2026-09-30)	PASS	NonPolyA_perM 103 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does