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
GSM3137215	M	M	NA	Agree	0.02	12.90	0.00	72.36	18.07	78.29	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.840399	0.113065	0.036899	0.009638	91.70	3.99	3.42	142	LP2 (2026-09-30)	PASS	NonPolyA_perM 142 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137216	M	M	NA	Agree	0.05	11.60	0.00	79.57	19.99	79.95	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.848509	0.103116	0.035503	0.012871	91.95	4.02	3.27	136	LP2 (2026-09-30)	PASS	NonPolyA_perM 136 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137217	M	M	NA	Agree	0.03	15.48	0.00	84.02	19.27	90.12	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.818739	0.134961	0.036927	0.009373	91.92	3.67	3.47	161	LP2 (2026-09-30)	PASS	NonPolyA_perM 161 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137218	M	M	NA	Agree	0.06	9.43	0.00	66.97	16.39	99.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.876304	0.079804	0.035099	0.008793	90.86	4.52	3.80	118	LP2 (2026-09-30)	PASS	NonPolyA_perM 118 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137219	M	M	NA	Agree	0.03	9.02	0.00	68.17	19.50	93.23	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.859478	0.09553	0.03606	0.008932	91.25	4.37	3.56	126	LP2 (2026-09-30)	PASS	NonPolyA_perM 126 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137220	M	M	NA	Agree	0.04	10.16	0.00	82.74	17.28	112.97	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.858299	0.093247	0.037462	0.010993	90.80	4.63	3.56	143	LP2 (2026-09-30)	PASS	NonPolyA_perM 143 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137221	M	M	NA	Agree	0.05	17.63	0.00	80.39	25.19	66.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.781849	0.174052	0.03657	0.007529	91.78	3.38	3.48	190	LP2 (2026-09-30)	PASS	NonPolyA_perM 190 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137222	M	M	NA	Agree	0.19	15.70	0.00	79.01	24.82	70.73	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.779099	0.175287	0.037977	0.007637	92.09	3.27	3.39	218	LP2 (2026-09-30)	PASS	NonPolyA_perM 218 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137223	M	M	NA	Agree	0.13	14.24	0.00	84.96	22.43	66.03	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.786837	0.170387	0.036796	0.005979	91.96	3.12	3.44	198	LP2 (2026-09-30)	PASS	NonPolyA_perM 198 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137224	M	M	NA	Agree	0.03	11.28	0.00	91.10	15.78	62.54	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.848997	0.099158	0.035541	0.016304	93.51	4.29	1.70	158	LP2 (2026-09-30)	PASS	NonPolyA_perM 158 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137225	M	M	NA	Agree	0.06	8.79	0.00	70.00	13.89	57.85	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.835683	0.110493	0.03457	0.019255	93.17	4.49	1.82	165	LP2 (2026-09-30)	PASS	NonPolyA_perM 165 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137226	M	M	NA	Agree	0.01	6.54	0.00	44.42	13.94	60.12	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.85634	0.093885	0.034184	0.015591	92.74	4.21	2.30	149	LP2 (2026-09-30)	PASS	NonPolyA_perM 149 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137227	M	M	NA	Agree	0.00	8.06	0.00	68.46	14.84	65.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.841049	0.106372	0.03831	0.01427	92.82	4.13	2.33	197	LP2 (2026-09-30)	PASS	NonPolyA_perM 197 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137228	M	M	NA	Agree	0.01	6.63	0.00	57.16	12.90	43.27	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.86738	0.080244	0.031695	0.02068	92.92	4.87	1.76	136	LP2 (2026-09-30)	PASS	NonPolyA_perM 136 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137229	M	M	NA	Agree	0.00	6.96	0.00	58.08	12.38	49.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.851512	0.100734	0.031999	0.015755	93.17	4.41	1.96	143	LP2 (2026-09-30)	PASS	NonPolyA_perM 143 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137230	M	M	NA	Agree	0.01	5.36	0.00	33.15	12.62	50.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.85696	0.084464	0.029926	0.02865	91.57	5.61	2.24	120	LP2 (2026-09-30)	PASS	NonPolyA_perM 120 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137231	M	M	NA	Agree	0.03	5.39	0.00	48.69	11.67	54.73	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865838	0.08786	0.033818	0.012485	92.83	4.24	2.27	132	LP2 (2026-09-30)	PASS	NonPolyA_perM 132 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137232	M	M	NA	Agree	0.03	10.22	0.00	71.38	19.21	54.67	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.810811	0.145798	0.033048	0.010344	94.29	3.38	1.71	182	LP2 (2026-09-30)	PASS	NonPolyA_perM 182 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137233	M	M	NA	Agree	0.06	12.31	0.00	81.87	17.59	48.57	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.804171	0.156623	0.033084	0.006122	94.15	3.29	1.74	200	LP2 (2026-09-30)	PASS	NonPolyA_perM 200 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137234	M	M	NA	Agree	0.17	5.57	0.00	42.54	10.30	49.15	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.832042	0.117007	0.039769	0.011181	92.82	3.68	2.56	199	LP2 (2026-09-30)	PASS	NonPolyA_perM 199 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3137235	M	M	NA	Agree	0.10	12.30	0.00	70.59	21.67	54.54	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.793788	0.162338	0.032507	0.011367	93.58	3.68	1.92	182	LP2 (2026-09-30)	PASS	NonPolyA_perM 182 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does