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
GSM1581142	M	M	NA	Agree	0.00	4.15	0.00	28.12	16.41	42.65	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.891473	0.052241	0.05137	0.004915	73.34	2.34	24.09	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1581143	M	M	NA	Agree	0.00	4.53	0.00	35.84	24.95	64.74	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.905623	0.034473	0.054581	0.005323	71.65	2.44	25.71	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1581144	M	M	NA	Agree	0.00	4.41	0.00	37.14	17.54	53.89	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.912044	0.03415	0.050073	0.003733	74.34	2.30	23.16	37	LP2 (2026-09-30)	PASS	NonPolyA_perM 37 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1581145	M	M	NA	Agree	0.01	6.91	0.00	49.33	28.71	91.19	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.895847	0.038974	0.06304	0.002139	76.79	2.26	20.72	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1581150	M	M	NA	Agree	0.00	2.78	0.00	12.09	9.07	23.21	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.914866	0.038265	0.040306	0.006562	96.38	2.99	0.39	41	LP2 (2026-09-30)	PASS	NonPolyA_perM 41 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1581151	M	M	NA	Agree	0.01	4.04	0.00	13.26	10.02	27.28	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.910668	0.042238	0.041875	0.005219	96.38	2.98	0.41	28	LP2 (2026-09-30)	PASS	NonPolyA_perM 28 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1581152	M	M	NA	Agree	0.00	2.88	0.00	10.67	9.59	24.75	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912222	0.040702	0.041416	0.005659	96.23	2.96	0.58	43	LP2 (2026-09-30)	PASS	NonPolyA_perM 43 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does