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
GSM4261775	M	M	NA	Agree	0.00	2.87	0.00	11.74	4.44	16.24	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.475113	0.42545	0.096483	0.002954	89.03	7.26	2.48	7033	LP2 (2026-09-30)	PASS	NonPolyA_perM 7033 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261776	M	M	NA	Agree	0.00	2.48	0.00	10.87	4.16	15.59	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.48287	0.406845	0.103045	0.00724	88.54	7.99	2.29	7334	LP2 (2026-09-30)	PASS	NonPolyA_perM 7334 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261777	M	M	NA	Agree	0.00	2.56	0.00	10.25	3.99	14.03	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.499803	0.393218	0.104896	0.002083	88.11	8.27	2.13	10570	LP2 (2026-09-30)	PASS	NonPolyA_perM 10570 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261778	M	M	NA	Agree	0.00	1.36	0.00	5.95	2.70	8.81	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.500229	0.364451	0.131235	0.004084	84.94	11.48	2.06	12740	LP2 (2026-09-30)	PASS	NonPolyA_perM 12740 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261779	M	M	NA	Agree	0.00	2.53	0.00	9.73	4.31	12.21	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.461833	0.43434	0.099279	0.004548	88.52	7.71	2.18	6029	LP2 (2026-09-30)	PASS	NonPolyA_perM 6029 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261780	M	M	NA	Agree	0.00	2.11	0.00	9.15	4.13	10.73	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.473997	0.409106	0.110938	0.005959	87.26	9.13	2.13	7696	LP2 (2026-09-30)	PASS	NonPolyA_perM 7696 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261781	M	M	NA	Agree	0.00	3.19	0.00	13.31	5.35	17.43	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.499706	0.405632	0.092246	0.002417	88.86	6.25	3.66	6506	LP2 (2026-09-30)	PASS	NonPolyA_perM 6506 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261782	M	M	NA	Agree	0.00	2.58	0.00	12.09	4.87	14.73	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.515504	0.36804	0.110874	0.005582	88.10	8.82	1.82	8603	LP2 (2026-09-30)	PASS	NonPolyA_perM 8603 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261783	M	Undetermined	NA	Conflict	3.15	0.82	0.00	3.88	1.65	4.94	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.585321	0.270259	0.136085	0.008335	82.57	13.57	2.28	11655	LP2 (2026-09-30)	PASS	NonPolyA_perM 11655 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261784	M	M	NA	Agree	2.40	0.93	0.00	4.40	1.86	5.37	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.563798	0.268363	0.150923	0.016916	80.46	15.64	2.34	13281	LP2 (2026-09-30)	PASS	NonPolyA_perM 13281 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261785	M	M	NA	Agree	0.00	1.42	0.00	6.15	2.57	7.60	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.572458	0.249152	0.141961	0.03643	76.60	17.32	4.51	16321	LP2 (2026-09-30)	PASS	NonPolyA_perM 16321 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4261786	M	M	NA	Agree	0.00	1.36	0.00	5.86	2.56	7.53	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.550927	0.28479	0.145285	0.018997	79.78	15.90	2.47	15797	LP2 (2026-09-30)	PASS	NonPolyA_perM 15797 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not