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
GSM8953479	M	M	NA	Agree	0.63	7.37	0.00	36.89	15.22	83.47	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.789692	0.110043	0.051693	0.048572	88.41	7.91	2.78	146	LP2 (2026-09-30)	PASS	NonPolyA_perM 146 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953480	M	M	NA	Agree	0.80	6.43	0.00	33.81	15.91	83.06	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.803324	0.109143	0.053161	0.034372	88.01	6.51	4.56	116	LP2 (2026-09-30)	PASS	NonPolyA_perM 116 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953481	M	M	NA	Agree	0.66	4.70	0.00	26.14	13.55	74.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.824541	0.100453	0.053295	0.021711	89.69	5.32	3.54	113	LP2 (2026-09-30)	PASS	NonPolyA_perM 113 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953482	M	M	NA	Agree	0.60	6.08	0.00	34.05	17.20	85.55	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.814613	0.105838	0.052089	0.02746	87.99	5.70	5.43	116	LP2 (2026-09-30)	PASS	NonPolyA_perM 116 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953483	M	M	NA	Agree	0.38	6.16	0.00	37.94	15.64	93.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.828402	0.110643	0.052981	0.007973	89.58	4.15	4.64	111	LP2 (2026-09-30)	PASS	NonPolyA_perM 111 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953484	M	M	NA	Agree	0.57	8.34	0.00	41.33	17.98	106.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.807996	0.124873	0.053703	0.013427	87.27	4.54	7.19	133	LP2 (2026-09-30)	PASS	NonPolyA_perM 133 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953485	M	M	NA	Agree	0.90	6.68	0.00	36.28	15.59	93.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.792986	0.123784	0.05297	0.03026	86.31	5.99	6.60	116	LP2 (2026-09-30)	PASS	NonPolyA_perM 116 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953486	M	M	NA	Agree	1.03	5.97	0.00	31.89	13.53	80.54	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.816316	0.10963	0.052747	0.021308	87.12	5.23	5.21	104	LP2 (2026-09-30)	PASS	NonPolyA_perM 104 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953487	M	M	NA	Agree	0.72	8.88	0.00	40.43	17.28	108.74	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.791478	0.129839	0.054017	0.024666	87.95	5.60	5.77	162	LP2 (2026-09-30)	PASS	NonPolyA_perM 162 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953488	M	M	NA	Agree	0.49	7.22	0.00	32.23	13.42	82.78	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.809167	0.110045	0.052163	0.028624	87.47	5.86	6.14	106	LP2 (2026-09-30)	PASS	NonPolyA_perM 106 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953489	M	M	NA	Agree	0.70	8.70	0.00	41.81	16.53	93.31	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.804728	0.123058	0.054713	0.017501	85.43	4.83	8.42	120	LP2 (2026-09-30)	PASS	NonPolyA_perM 120 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953490	M	M	NA	Agree	0.72	5.31	0.00	30.37	14.14	79.86	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.821054	0.103744	0.054783	0.02042	82.92	5.09	8.93	97	LP2 (2026-09-30)	PASS	NonPolyA_perM 97 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953491	M	M	NA	Agree	0.77	8.44	0.00	39.87	15.78	95.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.783084	0.125709	0.0534	0.037808	84.56	6.81	6.97	132	LP2 (2026-09-30)	PASS	NonPolyA_perM 132 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953492	M	M	NA	Agree	1.11	8.59	0.00	42.57	17.20	107.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.80223	0.129521	0.055924	0.012325	85.23	4.38	8.05	139	LP2 (2026-09-30)	PASS	NonPolyA_perM 139 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953493	M	M	NA	Agree	0.79	6.18	0.00	40.75	18.58	100.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.781399	0.124998	0.052813	0.04079	86.82	6.97	4.86	141	LP2 (2026-09-30)	PASS	NonPolyA_perM 141 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953494	M	M	NA	Agree	0.80	6.53	0.00	34.32	17.00	87.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.82188	0.112131	0.053542	0.012447	88.78	4.47	6.01	112	LP2 (2026-09-30)	PASS	NonPolyA_perM 112 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953495	M	M	NA	Agree	0.74	7.50	0.00	40.08	15.95	103.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.802981	0.113769	0.053478	0.029772	85.76	5.96	6.22	107	LP2 (2026-09-30)	PASS	NonPolyA_perM 107 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953496	M	M	NA	Agree	0.85	8.03	0.00	41.81	17.59	102.83	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.766977	0.138503	0.05445	0.04007	83.18	6.80	7.61	138	LP2 (2026-09-30)	PASS	NonPolyA_perM 138 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953497	M	M	NA	Agree	0.83	7.93	0.00	44.69	17.34	107.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.775245	0.140668	0.053903	0.030184	82.09	5.82	8.11	140	LP2 (2026-09-30)	PASS	NonPolyA_perM 140 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953498	M	M	NA	Agree	0.92	7.73	0.00	40.92	14.61	94.74	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.783512	0.12529	0.052608	0.03859	83.03	6.62	8.03	141	LP2 (2026-09-30)	PASS	NonPolyA_perM 141 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953499	M	M	NA	Agree	0.85	6.88	0.00	34.01	17.57	92.58	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.807553	0.115792	0.053862	0.022793	84.88	5.12	8.19	130	LP2 (2026-09-30)	PASS	NonPolyA_perM 130 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953500	M	M	NA	Agree	0.90	8.42	0.00	38.39	15.59	96.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.78871	0.122682	0.053404	0.035205	81.02	6.20	8.66	113	LP2 (2026-09-30)	PASS	NonPolyA_perM 113 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953501	M	M	NA	Agree	0.77	8.55	0.00	46.83	15.87	106.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.729724	0.140637	0.052267	0.077372	83.91	10.50	4.65	169	LP2 (2026-09-30)	PASS	NonPolyA_perM 169 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953502	M	M	NA	Agree	0.92	7.34	0.00	40.81	17.50	91.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.790326	0.127749	0.053703	0.028223	86.24	5.81	6.61	120	LP2 (2026-09-30)	PASS	NonPolyA_perM 120 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953503	M	M	NA	Agree	0.91	7.47	0.00	42.15	17.14	99.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.754907	0.147372	0.052626	0.045095	84.52	7.28	6.73	152	LP2 (2026-09-30)	PASS	NonPolyA_perM 152 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953504	M	M	NA	Agree	0.89	9.27	0.00	42.44	17.82	103.69	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.783207	0.131171	0.05482	0.030801	85.96	5.99	6.61	139	LP2 (2026-09-30)	PASS	NonPolyA_perM 139 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953505	M	M	NA	Agree	0.71	6.40	0.00	36.85	15.58	91.02	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.778733	0.123905	0.053336	0.044027	83.44	7.04	8.43	141	LP2 (2026-09-30)	PASS	NonPolyA_perM 141 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953506	M	M	NA	Agree	0.90	7.40	0.00	40.25	16.80	89.70	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.777046	0.133519	0.053152	0.036282	80.19	6.18	9.48	124	LP2 (2026-09-30)	PASS	NonPolyA_perM 124 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953507	M	M	NA	Agree	0.68	8.82	0.00	39.16	16.74	97.22	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.787276	0.123731	0.053361	0.035633	84.38	6.35	6.24	108	LP2 (2026-09-30)	PASS	NonPolyA_perM 108 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953508	M	M	NA	Agree	0.77	8.38	0.00	45.50	15.95	96.96	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.778713	0.123202	0.053128	0.044957	80.99	6.97	8.27	124	LP2 (2026-09-30)	PASS	NonPolyA_perM 124 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953509	M	M	NA	Agree	0.53	7.17	0.00	38.14	16.06	100.47	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.80193	0.119396	0.053486	0.025188	86.09	5.40	6.78	122	LP2 (2026-09-30)	PASS	NonPolyA_perM 122 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953510	M	M	NA	Agree	0.54	10.42	0.00	50.03	18.27	117.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.791695	0.135619	0.05513	0.017556	88.00	4.77	6.68	147	LP2 (2026-09-30)	PASS	NonPolyA_perM 147 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953511	M	M	NA	Agree	0.50	8.09	0.00	39.86	16.53	92.91	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.793498	0.120973	0.054121	0.031409	85.52	5.95	7.91	124	LP2 (2026-09-30)	PASS	NonPolyA_perM 124 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953512	M	M	NA	Agree	0.79	9.35	0.00	51.30	19.27	107.94	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.785181	0.135808	0.055439	0.023572	88.49	5.47	5.30	122	LP2 (2026-09-30)	PASS	NonPolyA_perM 122 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8953513	M	M	NA	Agree	0.75	12.03	0.00	55.72	20.97	122.24	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.787283	0.142452	0.056789	0.013476	88.40	4.43	6.39	151	LP2 (2026-09-30)	PASS	NonPolyA_perM 151 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does