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
GSM3746506	M	M	NA	Agree	0.09	7.19	0.00	23.72	19.36	88.06	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.889101	0.047894	0.032752	0.030253	91.01	5.84	2.62	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3746507	M	M	NA	Agree	0.08	6.77	0.08	24.23	21.47	86.95	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.881937	0.045316	0.033288	0.03946	90.55	6.85	2.06	56	LP2 (2026-09-30)	PASS	NonPolyA_perM 56 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3746508	M	M	NA	Agree	0.15	5.37	0.55	21.78	19.30	66.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.87548	0.066307	0.032494	0.025719	91.97	5.19	2.24	66	LP2 (2026-09-30)	PASS	NonPolyA_perM 66 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3746509	M	M	NA	Agree	0.09	4.47	0.00	12.53	14.54	55.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.86412	0.042883	0.02901	0.063987	88.56	8.93	2.06	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3746510	M	M	NA	Agree	0.08	4.28	0.36	19.14	20.87	70.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893987	0.047474	0.031694	0.026845	92.40	5.15	2.03	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3746511	M	M	NA	Agree	0.14	5.46	0.00	23.26	23.66	73.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.89454	0.054684	0.031218	0.019557	92.94	4.54	2.10	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3746512	M	M	NA	Agree	0.06	5.42	0.00	25.32	24.33	79.49	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.891603	0.053515	0.030293	0.024589	92.53	4.89	2.18	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3746513	M	M	NA	Agree	0.12	5.80	0.00	28.90	27.94	96.93	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.841961	0.069935	0.03304	0.055063	88.74	8.01	2.70	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does