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
GSM6288182	F	F	NA	Agree	221.02	0.03	0.00	0.02	0.05	0.05	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.50408	0.429479	0.060832	0.005609	82.54	3.52	12.00	3414	LP2 (2026-09-30)	PASS	NonPolyA_perM 3414 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM6288183	F	F	NA	Agree	200.35	0.00	0.00	0.03	0.03	0.10	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.512977	0.420535	0.060626	0.005861	81.65	3.50	12.77	3404	LP2 (2026-09-30)	PASS	NonPolyA_perM 3404 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM6288184	F	F	NA	Agree	206.69	0.03	0.00	0.02	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.507299	0.42854	0.059905	0.004256	81.96	3.31	12.80	3139	LP2 (2026-09-30)	PASS	NonPolyA_perM 3139 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM6288185	F	F	NA	Agree	247.38	0.00	0.00	0.00	0.03	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.481896	0.458046	0.056477	0.003581	82.40	3.01	12.47	3172	LP2 (2026-09-30)	PASS	NonPolyA_perM 3172 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM6288186	F	F	NA	Agree	145.98	0.01	0.00	0.02	0.00	0.04	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.488586	0.440524	0.064765	0.006125	81.25	4.14	11.87	3920	LP2 (2026-09-30)	PASS	NonPolyA_perM 3920 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM6288187	F	F	NA	Agree	155.87	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.471358	0.456366	0.064011	0.008265	84.62	4.17	8.75	5146	LP2 (2026-09-30)	PASS	NonPolyA_perM 5146 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not