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
GSM4947469	M	M	NA	Agree	0.07	3.33	0.00	22.10	8.93	17.40	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.864049	0.102996	0.025913	0.007043	77.93	18.12	3.17	194	LP2 (2026-09-30)	PASS	NonPolyA_perM 194 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4947470	M	M	NA	Agree	0.01	1.93	0.00	13.44	3.35	20.77	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.934208	0.042747	0.01977	0.003275	73.05	23.50	2.60	200	LP2 (2026-09-30)	PASS	NonPolyA_perM 200 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4947471	M	M	NA	Agree	0.01	1.59	0.00	11.40	2.69	18.25	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.945477	0.035778	0.016595	0.00215	70.28	26.30	2.62	155	LP2 (2026-09-30)	PASS	NonPolyA_perM 155 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4947472	M	M	NA	Agree	0.25	9.37	0.00	59.24	25.34	65.06	SECOND_READ_TRANSCRIPTION_STRAND	AMBIGUOUS	0.783498	0.178596	0.035209	0.002697	92.40	4.63	2.59	419	LP2 (2026-09-30)	PASS	NonPolyA_perM 419 is between 350 and 700, outside the range of every calibration study; check the study methods
GSM4947473	M	M	NA	Agree	0.14	7.18	0.00	45.98	22.01	68.91	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.811439	0.151901	0.033024	0.003636	89.85	5.91	3.82	318	LP2 (2026-09-30)	PASS	NonPolyA_perM 318 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4947474	M	M	NA	Agree	0.12	5.58	0.00	32.22	12.12	28.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.870251	0.100115	0.028057	0.001577	83.82	13.58	2.01	232	LP2 (2026-09-30)	PASS	NonPolyA_perM 232 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4947475	M	M	NA	Agree	0.02	2.75	0.00	25.91	7.39	15.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.843746	0.118635	0.024352	0.013267	79.09	17.95	2.30	337	LP2 (2026-09-30)	PASS	NonPolyA_perM 337 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4947476	M	M	NA	Agree	0.02	1.52	0.00	15.28	6.73	10.64	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.868884	0.098419	0.021529	0.011168	76.94	19.27	3.09	290	LP2 (2026-09-30)	PASS	NonPolyA_perM 290 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4947477	M	M	NA	Agree	0.02	1.20	0.00	11.44	5.87	9.27	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.88821	0.08364	0.020747	0.007404	75.69	19.42	4.20	239	LP2 (2026-09-30)	PASS	NonPolyA_perM 239 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does