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 (2026-10-16) 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
GSM3518258	M	M	NA	Agree	0.14	1.73	0.00	16.60	5.03	21.66	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.795392	0.055675	0.021956	0.126977	80.89	15.15	3.30	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518259	M	M	NA	Agree	0.14	2.11	0.00	17.72	5.75	22.63	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.837098	0.060955	0.023735	0.078212	85.29	10.51	3.54	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518260	M	M	NA	Agree	0.09	2.65	0.00	15.77	5.71	19.76	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.854678	0.049993	0.022928	0.072401	85.46	9.89	3.80	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518261	M	M	NA	Agree	0.08	1.32	0.00	7.33	3.73	7.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883883	0.019275	0.015586	0.081257	81.38	10.38	7.27	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518262	M	M	NA	Agree	0.14	1.80	0.00	15.72	5.10	27.61	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.805492	0.060821	0.024587	0.1091	81.72	13.20	4.14	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518263	M	M	NA	Agree	0.22	0.96	0.00	10.77	3.94	21.40	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.776518	0.059659	0.022272	0.141552	78.57	16.34	4.04	70	LP2 (2026-09-30)	PASS	NonPolyA_perM 70 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518264	M	M	NA	Agree	0.18	1.64	0.00	16.21	5.03	29.31	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.827482	0.063003	0.026662	0.082853	83.64	10.93	4.54	76	LP2 (2026-09-30)	PASS	NonPolyA_perM 76 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518265	M	M	NA	Agree	0.10	2.14	0.00	17.74	6.23	23.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.845243	0.056113	0.024555	0.074089	85.48	10.03	3.69	48	LP2 (2026-09-30)	PASS	NonPolyA_perM 48 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518266	M	M	NA	Agree	0.06	1.75	0.00	15.50	5.06	20.29	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.851285	0.052607	0.022774	0.073333	85.38	10.38	3.49	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518267	M	M	NA	Agree	0.19	1.57	0.00	11.04	4.15	20.30	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.818143	0.045081	0.021413	0.115363	79.63	14.11	5.21	66	LP2 (2026-09-30)	PASS	NonPolyA_perM 66 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518268	M	M	NA	Agree	0.63	1.97	0.00	20.65	9.43	28.55	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.885176	0.060458	0.030495	0.023871	70.23	5.04	21.89	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518269	M	M	NA	Agree	0.13	1.46	0.00	17.88	5.32	21.33	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.760922	0.059195	0.021561	0.158322	76.91	17.30	4.80	57	LP2 (2026-09-30)	PASS	NonPolyA_perM 57 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518270	M	M	NA	Agree	0.09	1.56	0.00	12.83	4.34	21.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.748126	0.0514	0.022395	0.178079	75.85	19.81	3.45	175	LP2 (2026-09-30)	PASS	NonPolyA_perM 175 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518271	M	M	NA	Agree	0.10	1.05	0.00	8.52	4.09	21.46	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865632	0.044983	0.02318	0.066205	84.86	9.68	4.47	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518272	M	M	NA	Agree	0.13	1.14	0.00	9.17	3.83	19.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.82152	0.046183	0.021285	0.111012	81.99	13.66	3.74	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518273	M	M	NA	Agree	0.05	1.89	0.00	13.39	5.42	23.08	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.775768	0.056251	0.020378	0.147602	78.69	16.52	4.19	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does