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 (2026-10-22) 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
GSM5935466	M	M	NA	Agree	0.00	1.76	0.00	4.73	2.15	7.37	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.781251	0.109292	0.107418	0.002039	86.03	11.06	2.03	4182	LP2 (2026-09-30)	PASS	NonPolyA_perM 4182 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935467	M	M	NA	Agree	0.00	1.41	0.00	3.94	1.75	8.06	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.799869	0.073502	0.123888	0.002741	83.59	13.51	1.73	5495	LP2 (2026-09-30)	PASS	NonPolyA_perM 5495 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935468	M	M	NA	Agree	0.01	1.20	0.00	4.09	1.63	6.70	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.808253	0.067403	0.121299	0.003045	84.02	13.15	1.69	5278	LP2 (2026-09-30)	PASS	NonPolyA_perM 5278 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935469	M	M	NA	Agree	0.00	0.96	0.00	2.70	1.03	5.47	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.782915	0.051559	0.164183	0.001343	77.47	19.08	1.90	8606	LP2 (2026-09-30)	PASS	NonPolyA_perM 8606 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935470	M	M	NA	Agree	0.00	0.98	0.00	2.67	1.14	5.96	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.79231	0.055765	0.14998	0.001944	80.04	16.91	1.60	7520	LP2 (2026-09-30)	PASS	NonPolyA_perM 7520 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935471	M	M	NA	Agree	0.00	1.54	0.00	2.53	1.94	6.11	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.794632	0.074695	0.126541	0.004132	83.25	13.87	1.58	5995	LP2 (2026-09-30)	PASS	NonPolyA_perM 5995 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935472	M	M	NA	Agree	0.00	1.89	0.00	3.52	2.06	8.83	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.816091	0.069287	0.112309	0.002313	84.56	12.34	1.87	5362	LP2 (2026-09-30)	PASS	NonPolyA_perM 5362 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935473	M	M	NA	Agree	0.01	2.04	0.00	4.36	2.11	7.47	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.788429	0.097314	0.111893	0.002363	84.97	12.17	1.66	5438	LP2 (2026-09-30)	PASS	NonPolyA_perM 5438 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935474	M	M	NA	Agree	0.01	1.70	0.00	3.51	2.16	6.86	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.797174	0.073001	0.128165	0.00166	83.04	14.38	1.36	6721	LP2 (2026-09-30)	PASS	NonPolyA_perM 6721 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5935475	M	M	NA	Agree	0.00	2.35	0.00	5.30	3.14	9.60	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.804121	0.097433	0.096588	0.001858	86.91	10.15	1.81	4511	LP2 (2026-09-30)	PASS	NonPolyA_perM 4511 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not