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). For 8 samples processed before workflow 2.1, ComputedSex is the earlier curated call, kept after review where it differed from the rule above.
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
GSM8033637	F	F	NA	Agree	296.85	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.779778	0.120042	0.085309	0.014871	83.74	2.57	13.38	105	LP2 (2026-09-30)	PASS	NonPolyA_perM 105 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033638	F	F	NA	Agree	392.16	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.729037	0.164276	0.090287	0.0164	83.10	2.68	13.91	121	LP2 (2026-09-30)	PASS	NonPolyA_perM 121 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033639	F	F	NA	Agree	371.48	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.778709	0.142756	0.065784	0.012751	85.93	2.64	11.19	142	LP2 (2026-09-30)	PASS	NonPolyA_perM 142 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033640	F	F	NA	Agree	452.18	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.750062	0.179672	0.061257	0.00901	78.20	1.99	19.40	102	LP2 (2026-09-30)	PASS	NonPolyA_perM 102 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033641	F	F	NA	Agree	225.25	0.00	0.00	0.12	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.811164	0.110962	0.061445	0.016429	85.05	2.83	11.82	102	LP2 (2026-09-30)	PASS	NonPolyA_perM 102 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033642	F	F	NA	Agree	310.08	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.773198	0.141547	0.067694	0.017561	85.24	2.88	11.55	124	LP2 (2026-09-30)	PASS	NonPolyA_perM 124 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033643	F	F	NA	Agree	272.65	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.806642	0.127665	0.05639	0.009304	80.38	2.06	17.16	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033644	F	F	NA	Agree	279.15	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.820924	0.111848	0.056724	0.010504	81.27	2.17	16.22	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033645	F	F	NA	Agree	247.11	0.00	0.00	0.07	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.807063	0.106362	0.066095	0.020481	84.54	3.23	11.90	87	LP2 (2026-09-30)	PASS	NonPolyA_perM 87 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033646	F	F	NA	Agree	7.88	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.911697	0.04175	0.038145	0.008407	86.84	2.70	10.06	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033647	F	F	NA	Agree	8.01	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.920073	0.034896	0.037003	0.008028	86.36	2.70	10.56	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033648	F	F	NA	Agree	7.34	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.925255	0.031963	0.034498	0.008285	87.90	2.85	8.83	25	LP2 (2026-09-30)	PASS	NonPolyA_perM 25 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033649	F	F	NA	Agree	6.64	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.916396	0.038324	0.037975	0.007305	86.50	2.61	10.46	28	LP2 (2026-09-30)	PASS	NonPolyA_perM 28 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033650	F	F	NA	Agree	5.80	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.935906	0.021025	0.034507	0.008561	86.72	2.87	10.00	17	LP2 (2026-09-30)	PASS	NonPolyA_perM 17 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033651	F	F	NA	Agree	8.18	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.91453	0.037629	0.04012	0.007721	85.54	2.84	11.21	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033652	F	F	NA	Agree	2.55	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.925534	0.03004	0.038556	0.00587	86.84	2.40	10.45	23	LP2 (2026-09-30)	PASS	NonPolyA_perM 23 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033653	F	F	NA	Agree	9.95	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.923651	0.033014	0.03514	0.008196	86.48	2.74	10.35	26	LP2 (2026-09-30)	PASS	NonPolyA_perM 26 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM8033654	F	F	NA	Agree	5.09	0.00	0.00	0.00	0.00	0.00	NONE	POLYA	0.932978	0.025151	0.033398	0.008473	85.31	2.78	11.44	14	LP2 (2026-09-30)	PASS	NonPolyA_perM 14 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does