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
GSM1456414	M	M	NA	Agree	0.01	3.75	0.00	26.37	14.13	36.15	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.899838	0.041237	0.050955	0.007969	67.45	2.57	29.76	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456415	M	M	NA	Agree	0.03	4.52	0.00	38.07	20.87	48.22	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.901593	0.037764	0.053392	0.00725	78.57	2.67	18.52	40	LP2 (2026-09-30)	PASS	NonPolyA_perM 40 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456416	M	M	NA	Agree	0.00	4.14	0.00	31.85	19.79	49.74	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.908533	0.037743	0.048236	0.005489	75.46	2.41	21.93	57	LP2 (2026-09-30)	PASS	NonPolyA_perM 57 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456417	M	M	NA	Agree	0.00	4.60	0.00	29.04	19.22	61.86	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.904074	0.036655	0.054427	0.004845	76.33	2.68	20.77	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456418	M	M	NA	Agree	0.02	5.31	0.00	33.72	20.94	47.56	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.907128	0.038021	0.051256	0.003595	76.16	2.33	21.30	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456419	M	M	NA	Agree	0.02	3.30	0.00	25.69	15.37	36.77	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.903832	0.039763	0.050817	0.005588	75.99	2.59	21.20	41	LP2 (2026-09-30)	PASS	NonPolyA_perM 41 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456420	M	M	NA	Agree	0.00	3.56	0.00	24.68	13.63	42.57	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.91378	0.031177	0.049665	0.005377	74.59	2.50	22.71	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456421	M	M	NA	Agree	0.03	5.51	0.00	41.44	25.08	72.50	FIRST_READ_TRANSCRIPTION_STRAND	POLYA	0.908348	0.032237	0.055799	0.003616	76.53	2.33	20.94	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456430	M	M	NA	Agree	0.02	3.16	0.00	11.30	9.93	24.35	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.915937	0.032589	0.038535	0.012939	95.45	3.71	0.63	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456431	M	M	NA	Agree	0.00	3.03	0.00	12.88	8.38	31.21	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.914889	0.034904	0.040246	0.009961	95.68	3.52	0.55	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456432	M	M	NA	Agree	0.00	3.24	0.00	12.60	9.41	31.80	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.8989	0.041348	0.041522	0.01823	94.59	4.54	0.64	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456433	M	M	NA	Agree	0.00	2.44	0.00	8.92	8.47	22.24	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.907623	0.03716	0.038216	0.017001	94.92	3.91	0.96	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456434	M	M	NA	Agree	0.00	2.44	0.00	13.15	10.87	27.54	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911159	0.035699	0.040965	0.012177	95.41	3.81	0.53	33	LP2 (2026-09-30)	PASS	NonPolyA_perM 33 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456435	M	M	NA	Agree	0.00	3.07	0.00	12.66	8.92	26.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.91181	0.033614	0.038856	0.01572	95.07	3.84	0.89	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1456436	M	M	NA	Agree	0.00	3.18	0.00	10.35	9.83	19.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.917415	0.034722	0.038914	0.00895	95.77	3.28	0.73	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM1501578	M	M	NA	Agree	0.00	0.63	0.00	2.30	4.93	15.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911954	0.041466	0.030543	0.016036	90.36	3.83	5.60	35	LP2 (2026-09-30)	PASS	NonPolyA_perM 35 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does