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 (2026-10-21) 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
GSM5920256	F	F	NA	Agree	60.34	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.731353	0.150465	0.112753	0.005429	83.84	9.10	6.23	12818	LP2 (2026-09-30)	PASS	NonPolyA_perM 12818 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920257	F	F	NA	Agree	79.75	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.756091	0.133224	0.10551	0.005175	84.93	8.53	5.75	10647	LP2 (2026-09-30)	PASS	NonPolyA_perM 10647 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920258	F	F	NA	Agree	61.86	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.762859	0.126653	0.106015	0.004473	84.98	9.13	5.18	11825	LP2 (2026-09-30)	PASS	NonPolyA_perM 11825 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920259	F	F	NA	Agree	118.49	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.657574	0.223516	0.116285	0.002625	84.45	8.97	5.67	13564	LP2 (2026-09-30)	PASS	NonPolyA_perM 13564 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920260	F	F	NA	Agree	93.21	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.709713	0.1745	0.113007	0.002781	85.30	8.84	5.07	12933	LP2 (2026-09-30)	PASS	NonPolyA_perM 12933 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920261	F	F	NA	Agree	110.07	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.704042	0.190148	0.102504	0.003305	84.65	8.08	6.36	10718	LP2 (2026-09-30)	PASS	NonPolyA_perM 10718 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920262	F	F	NA	Agree	87.47	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.706484	0.164983	0.124746	0.003788	82.72	10.02	6.32	13229	LP2 (2026-09-30)	PASS	NonPolyA_perM 13229 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920263	F	F	NA	Agree	92.71	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.671862	0.189646	0.136148	0.002344	82.03	10.85	6.18	14755	LP2 (2026-09-30)	PASS	NonPolyA_perM 14755 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920264	F	F	NA	Agree	83.61	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.684607	0.188698	0.124343	0.002352	83.82	9.93	5.35	14621	LP2 (2026-09-30)	PASS	NonPolyA_perM 14621 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920265	F	F	NA	Agree	92.98	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.729419	0.163309	0.104093	0.003179	85.90	7.92	5.41	9437	LP2 (2026-09-30)	PASS	NonPolyA_perM 9437 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920266	F	F	NA	Agree	102.15	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.715848	0.177466	0.103115	0.003571	85.96	7.82	5.43	10477	LP2 (2026-09-30)	PASS	NonPolyA_perM 10477 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM5920267	F	F	NA	Agree	109.89	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.727629	0.166138	0.101742	0.004492	85.29	7.73	6.16	10923	LP2 (2026-09-30)	PASS	NonPolyA_perM 10923 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not