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 (2026-10-16) 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
GSM3518574	M	M	NA	Agree	0.05	1.25	0.00	11.33	5.57	22.77	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.928023	0.044394	0.02026	0.007323	86.85	2.87	9.85	44	LP2 (2026-09-30)	PASS	NonPolyA_perM 44 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518575	M	M	NA	Agree	0.07	0.45	0.00	3.49	1.31	18.21	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.931032	0.030317	0.020108	0.018544	83.08	4.15	12.20	49	LP2 (2026-09-30)	PASS	NonPolyA_perM 49 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518576	M	M	NA	Agree	0.03	1.43	0.00	13.13	5.80	26.34	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.926003	0.047667	0.022245	0.004086	85.87	2.58	11.11	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518577	M	M	NA	Agree	0.08	0.87	0.00	5.21	3.55	27.70	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.926893	0.038671	0.021975	0.012461	80.36	3.30	15.87	41	LP2 (2026-09-30)	PASS	NonPolyA_perM 41 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518578	M	M	NA	Agree	0.03	1.70	0.00	16.02	5.96	26.88	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.906198	0.050198	0.020789	0.022814	84.53	4.34	10.72	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518579	M	M	NA	Agree	0.04	0.86	0.00	7.58	2.99	25.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.937662	0.033602	0.020911	0.007824	83.71	3.07	12.67	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518580	M	M	NA	Agree	0.14	0.73	0.00	4.74	2.14	21.08	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.937767	0.034857	0.019775	0.007601	87.09	2.95	9.60	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518581	M	M	NA	Agree	0.12	0.90	0.00	6.14	2.94	24.97	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.932357	0.039476	0.020996	0.007172	85.00	3.02	11.49	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518582	M	M	NA	Agree	0.01	1.39	0.00	14.45	5.92	20.52	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.933622	0.042264	0.019763	0.00435	86.96	2.52	10.11	35	LP2 (2026-09-30)	PASS	NonPolyA_perM 35 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518583	M	M	NA	Agree	0.02	1.27	0.00	13.49	5.89	22.23	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.929858	0.04374	0.0205	0.005902	87.74	2.84	8.91	52	LP2 (2026-09-30)	PASS	NonPolyA_perM 52 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518584	M	M	NA	Agree	0.05	0.96	0.00	12.85	6.87	26.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.930424	0.043007	0.01958	0.00699	86.70	2.67	10.33	29	LP2 (2026-09-30)	PASS	NonPolyA_perM 29 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518585	M	M	NA	Agree	0.03	1.52	0.00	15.72	6.31	26.29	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.92654	0.047466	0.02133	0.004663	87.00	2.70	9.85	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518586	M	M	NA	Agree	0.01	1.25	0.00	16.34	6.29	26.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.923928	0.048255	0.022589	0.005229	86.97	2.75	9.82	37	LP2 (2026-09-30)	PASS	NonPolyA_perM 37 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518587	M	M	NA	Agree	0.04	0.79	0.00	6.14	2.77	26.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.936727	0.030017	0.021509	0.011746	82.91	3.63	13.00	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518588	M	M	NA	Agree	0.01	1.37	0.00	14.60	6.10	24.17	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.926109	0.046598	0.020433	0.006859	86.99	2.96	9.67	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3518589	M	M	NA	Agree	0.00	1.34	0.00	14.05	7.30	25.13	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.929697	0.043134	0.020765	0.006404	84.99	2.72	11.82	39	LP2 (2026-09-30)	PASS	NonPolyA_perM 39 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does