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
GSM4150442	M	M	NA	Agree	0.00	5.42	0.00	22.29	14.68	55.99	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.771944	0.161853	0.053488	0.012715	90.57	3.91	4.82	146	LP2 (2026-09-30)	PASS	NonPolyA_perM 146 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150443	M	M	NA	Agree	0.00	2.79	0.00	19.43	7.53	53.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.856689	0.085356	0.049247	0.008708	90.24	4.02	4.83	91	LP2 (2026-09-30)	PASS	NonPolyA_perM 91 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150444	M	M	NA	Agree	0.40	2.29	0.00	10.04	5.75	41.68	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.819483	0.124918	0.04875	0.006849	90.55	3.59	4.93	109	LP2 (2026-09-30)	PASS	NonPolyA_perM 109 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150445	F	F	NA	Agree	116.11	0.00	0.00	0.00	0.02	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.774981	0.165888	0.053419	0.005712	92.74	2.93	3.61	142	LP2 (2026-09-30)	PASS	NonPolyA_perM 142 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150446	F	F	NA	Agree	90.38	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.774945	0.167488	0.053714	0.003852	91.55	2.78	4.88	122	LP2 (2026-09-30)	PASS	NonPolyA_perM 122 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150447	F	F	NA	Agree	97.68	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.775557	0.168596	0.052483	0.003364	91.28	2.69	5.25	120	LP2 (2026-09-30)	PASS	NonPolyA_perM 120 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150448	F	F	NA	Agree	62.64	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.807542	0.137853	0.049476	0.005129	93.38	3.12	2.86	138	LP2 (2026-09-30)	PASS	NonPolyA_perM 138 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150449	F	F	NA	Agree	83.47	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.770118	0.173444	0.051996	0.004443	91.49	2.91	4.83	136	LP2 (2026-09-30)	PASS	NonPolyA_perM 136 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150450	M	M	NA	Agree	0.01	3.19	0.00	19.88	5.55	45.22	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.76806	0.176658	0.049951	0.005331	88.12	3.32	6.97	166	LP2 (2026-09-30)	PASS	NonPolyA_perM 166 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150451	M	M	NA	Agree	0.00	6.53	0.00	27.90	12.32	66.80	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.846928	0.096022	0.049632	0.007417	90.33	3.52	5.44	99	LP2 (2026-09-30)	PASS	NonPolyA_perM 99 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150452	M	M	NA	Agree	0.01	0.85	0.00	5.00	4.07	12.01	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.844102	0.099116	0.047412	0.009369	89.86	3.93	5.67	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150453	M	M	NA	Agree	0.01	5.40	0.00	24.80	15.03	55.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.744692	0.197868	0.051402	0.006038	91.76	3.03	4.27	177	LP2 (2026-09-30)	PASS	NonPolyA_perM 177 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150454	M	M	NA	Agree	0.01	4.24	0.00	24.46	11.02	57.34	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.817533	0.124857	0.049408	0.008202	90.10	3.52	5.36	126	LP2 (2026-09-30)	PASS	NonPolyA_perM 126 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150455	F	F	NA	Agree	45.42	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.799122	0.142192	0.052748	0.005938	91.37	3.38	4.23	127	LP2 (2026-09-30)	PASS	NonPolyA_perM 127 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150456	F	F	NA	Agree	7.33	0.00	0.00	0.00	0.01	0.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.843928	0.095346	0.046437	0.014289	88.55	4.49	6.03	100	LP2 (2026-09-30)	PASS	NonPolyA_perM 100 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150457	F	F	NA	Agree	64.53	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.754848	0.185924	0.052388	0.006841	90.05	3.36	5.30	152	LP2 (2026-09-30)	PASS	NonPolyA_perM 152 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150458	M	M	NA	Agree	0.02	4.11	0.00	20.30	7.68	41.96	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.808624	0.136937	0.05067	0.003769	90.80	2.94	5.38	118	LP2 (2026-09-30)	PASS	NonPolyA_perM 118 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150459	M	M	NA	Agree	0.02	4.54	0.00	29.68	9.40	58.35	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.881003	0.070269	0.044474	0.004254	91.88	3.05	4.46	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150460	M	M	NA	Agree	0.01	6.06	0.00	24.55	13.59	58.31	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.784075	0.159295	0.048706	0.007925	91.25	3.19	4.64	106	LP2 (2026-09-30)	PASS	NonPolyA_perM 106 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150461	M	M	NA	Agree	0.02	1.07	0.00	5.99	5.16	21.65	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.787716	0.129981	0.0462	0.036102	89.71	6.18	3.50	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150462	F	F	NA	Agree	100.43	0.01	0.00	0.00	0.00	0.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.796383	0.148095	0.049955	0.005566	93.74	2.86	2.80	113	LP2 (2026-09-30)	PASS	NonPolyA_perM 113 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150463	F	F	NA	Agree	74.42	0.00	0.00	0.00	0.00	0.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.805785	0.139769	0.049781	0.004666	92.57	3.02	3.52	110	LP2 (2026-09-30)	PASS	NonPolyA_perM 110 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150464	F	Undetermined	NA	Conflict	0.37	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.746372	0.194509	0.053669	0.00545	90.73	2.99	5.29	155	LP2 (2026-09-30)	PASS	NonPolyA_perM 155 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150465	F	F	NA	Agree	53.10	0.00	0.00	0.00	0.00	0.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.799509	0.140265	0.050731	0.009495	91.75	3.73	3.78	125	LP2 (2026-09-30)	PASS	NonPolyA_perM 125 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150466	M	M	NA	Agree	0.00	2.00	0.00	9.62	7.30	49.96	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.815128	0.123868	0.04748	0.013524	89.24	4.12	4.94	111	LP2 (2026-09-30)	PASS	NonPolyA_perM 111 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150467	M	M	NA	Agree	0.01	1.25	0.00	4.73	5.34	28.42	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.827795	0.108999	0.047359	0.015847	88.95	4.58	5.58	97	LP2 (2026-09-30)	PASS	NonPolyA_perM 97 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4150468	M	M	NA	Agree	0.03	1.95	0.00	11.01	5.40	43.33	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.806577	0.13686	0.049682	0.006881	90.81	3.65	4.60	121	LP2 (2026-09-30)	PASS	NonPolyA_perM 121 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does