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
GSM9307904	M	M	NA	Agree	0.03	4.25	0.00	33.65	5.98	111.49	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.914342	0.035397	0.044288	0.005973	85.38	10.01	3.94	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307905	M	M	NA	Agree	0.00	5.60	0.00	31.76	7.06	69.91	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901748	0.041677	0.042867	0.013708	81.61	10.70	7.03	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307906	M	M	NA	Agree	0.02	4.52	0.00	25.83	5.78	85.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886443	0.049073	0.048679	0.015805	82.59	11.11	5.59	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307907	M	M	NA	Agree	0.01	4.54	0.00	28.71	9.23	88.10	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.910161	0.037724	0.045788	0.006327	87.21	8.02	4.17	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307908	M	M	NA	Agree	0.02	3.63	0.00	25.09	6.24	148.58	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.913545	0.030353	0.048426	0.007676	86.36	6.53	6.47	31	LP2 (2026-09-30)	PASS	NonPolyA_perM 31 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307909	M	M	NA	Agree	0.04	3.54	0.00	26.54	6.31	108.82	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.916117	0.030148	0.047499	0.006236	87.14	6.20	6.05	34	LP2 (2026-09-30)	PASS	NonPolyA_perM 34 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307910	M	M	NA	Agree	0.00	2.25	0.00	22.16	5.55	85.23	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.924668	0.028009	0.04272	0.004603	88.83	7.27	3.19	39	LP2 (2026-09-30)	PASS	NonPolyA_perM 39 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307911	M	M	NA	Agree	0.01	2.16	0.00	24.29	6.31	89.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.919349	0.031934	0.043054	0.005662	87.82	6.46	5.04	37	LP2 (2026-09-30)	PASS	NonPolyA_perM 37 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307912	M	M	NA	Agree	0.01	3.60	0.00	25.79	7.83	120.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.920975	0.026975	0.049027	0.003023	91.15	5.94	2.27	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307913	M	M	NA	Agree	0.03	2.75	0.00	16.43	6.25	50.79	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.934934	0.025198	0.033773	0.006094	88.76	9.21	1.37	38	LP2 (2026-09-30)	PASS	NonPolyA_perM 38 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307914	M	M	NA	Agree	0.01	2.56	0.00	24.55	6.50	89.24	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.929906	0.020938	0.044148	0.005007	91.55	5.75	2.06	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307915	M	M	NA	Agree	0.02	2.19	0.00	23.61	6.84	108.25	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.925672	0.026498	0.044405	0.003426	90.60	7.03	1.70	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307916	M	M	NA	Agree	0.02	2.73	0.00	23.62	7.15	92.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.92261	0.028286	0.045895	0.003209	90.11	6.79	2.44	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM9307917	M	M	NA	Agree	0.02	3.19	0.00	26.09	7.68	113.22	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.921181	0.027564	0.047729	0.003526	91.26	5.84	2.26	27	LP2 (2026-09-30)	PASS	NonPolyA_perM 27 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does