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
GSM5866134	not_specified	M	NA	Conflict	5.03	17.52	0.00	56.37	17.70	91.37	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.833311	0.118745	0.039332	0.008613	95.42	2.84	1.57	128	LP2 (2026-09-30)	PASS	NonPolyA_perM 128 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5866135	not_specified	M	NA	Conflict	0.10	17.18	0.00	61.81	20.10	99.37	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.814506	0.137417	0.042854	0.005223	95.34	2.55	1.90	163	LP2 (2026-09-30)	PASS	NonPolyA_perM 163 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5866136	not_specified	F	NA	Conflict	235.44	0.40	0.00	0.83	0.47	1.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.826206	0.123998	0.038376	0.01142	95.00	3.06	1.80	188	LP2 (2026-09-30)	PASS	NonPolyA_perM 188 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5866137	not_specified	M	NA	Conflict	0.21	13.18	0.00	46.39	14.12	71.21	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.85227	0.105681	0.034151	0.007897	94.24	3.96	1.62	133	LP2 (2026-09-30)	PASS	NonPolyA_perM 133 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5866138	not_specified	F	NA	Conflict	233.33	0.04	0.00	0.05	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.811509	0.14034	0.041594	0.006557	95.56	2.45	1.78	169	LP2 (2026-09-30)	PASS	NonPolyA_perM 169 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5866139	not_specified	M	NA	Conflict	0.23	11.40	0.00	60.79	17.56	87.79	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.820473	0.129495	0.040747	0.009284	94.97	2.95	1.90	180	LP2 (2026-09-30)	PASS	NonPolyA_perM 180 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5866140	not_specified	M	NA	Conflict	0.96	10.92	0.00	59.45	15.83	87.54	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.817427	0.134867	0.039286	0.008421	95.36	2.89	1.60	231	LP2 (2026-09-30)	PASS	NonPolyA_perM 231 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5866141	not_specified	F	NA	Conflict	283.25	0.04	0.00	0.13	0.03	0.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.829133	0.12549	0.037312	0.008064	95.40	2.70	1.73	169	LP2 (2026-09-30)	PASS	NonPolyA_perM 169 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does