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
GSM8415675	M	M	NA	Agree	0.14	7.01	0.00	43.65	15.49	43.01	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.863714	0.085657	0.038237	0.012392	85.24	3.77	10.65	81	LP2 (2026-09-30)	PASS	NonPolyA_perM 81 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8415676	M	M	NA	Agree	0.04	6.86	0.00	40.55	14.50	43.87	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.869243	0.079036	0.039324	0.012397	86.12	3.77	9.75	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8415677	M	M	NA	Agree	0.09	8.21	0.00	41.71	17.66	40.45	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.858234	0.09136	0.039047	0.011358	85.86	3.42	10.41	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8415678	M	M	NA	Agree	0.11	8.38	0.00	40.34	18.92	34.57	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.863066	0.087365	0.037884	0.011686	85.38	3.56	10.79	77	LP2 (2026-09-30)	PASS	NonPolyA_perM 77 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8415679	M	M	NA	Agree	0.12	8.27	0.00	41.54	15.02	38.41	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.856331	0.095867	0.038008	0.009793	85.15	3.32	11.30	91	LP2 (2026-09-30)	PASS	NonPolyA_perM 91 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does