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 1 sample 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
GSM4471880	F	F	NA	Agree	34.67	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.94762	0.024382	0.02512	0.002878	98.01	1.88	0.02	28	LP2 (2026-09-30)	PASS	NonPolyA_perM 28 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471881	F	F	NA	Agree	56.79	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.944165	0.024381	0.027616	0.003837	97.75	2.14	0.03	14	LP2 (2026-09-30)	PASS	NonPolyA_perM 14 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471882	F	F	NA	Agree	30.20	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.951601	0.019145	0.026228	0.003026	98.03	1.86	0.02	19	LP2 (2026-09-30)	PASS	NonPolyA_perM 19 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471883	F	F	NA	Agree	27.73	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.953287	0.018365	0.024299	0.004049	97.95	1.97	0.03	17	LP2 (2026-09-30)	PASS	NonPolyA_perM 17 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471884	F	F	NA	Agree	17.58	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.94972	0.020635	0.023975	0.00567	98.04	1.81	0.04	13	LP2 (2026-09-30)	PASS	NonPolyA_perM 13 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471885	F	F	NA	Agree	24.58	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.951193	0.019262	0.024704	0.00484	98.42	1.49	0.04	17	LP2 (2026-09-30)	PASS	NonPolyA_perM 17 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471886	F	F	NA	Agree	0.03	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.953411	0.017665	0.02551	0.003414	98.20	1.72	0.02	14	LP2 (2026-09-30)	PASS	NonPolyA_perM 14 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471887	F	F	NA	Agree	32.33	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.94705	0.023597	0.026266	0.003087	98.03	1.87	0.03	19	LP2 (2026-09-30)	PASS	NonPolyA_perM 19 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471888	F	F	NA	Agree	30.62	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.943913	0.022795	0.030542	0.002749	98.21	1.70	0.02	20	LP2 (2026-09-30)	PASS	NonPolyA_perM 20 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471889	F	F	NA	Agree	32.45	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.948168	0.020848	0.027636	0.003348	97.98	1.93	0.02	20	LP2 (2026-09-30)	PASS	NonPolyA_perM 20 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471890	F	F	NA	Agree	31.26	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.950503	0.020273	0.025953	0.003271	98.16	1.77	0.02	19	LP2 (2026-09-30)	PASS	NonPolyA_perM 19 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471891	F	F	NA	Agree	39.48	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.945312	0.022827	0.027012	0.004849	98.03	1.87	0.03	11	LP2 (2026-09-30)	PASS	NonPolyA_perM 11 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471892	F	F	NA	Agree	18.24	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.946593	0.018826	0.023689	0.010891	97.57	2.32	0.04	13	LP2 (2026-09-30)	PASS	NonPolyA_perM 13 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471893	F	F	NA	Agree	24.57	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.954595	0.018126	0.024236	0.003043	98.37	1.54	0.03	18	LP2 (2026-09-30)	PASS	NonPolyA_perM 18 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471894	F	F	NA	Agree	25.27	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.948084	0.021678	0.027147	0.003091	98.18	1.73	0.03	12	LP2 (2026-09-30)	PASS	NonPolyA_perM 12 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4471895	F	F	NA	Agree	50.85	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.931156	0.037692	0.026891	0.004261	98.07	1.82	0.04	32	LP2 (2026-09-30)	PASS	NonPolyA_perM 32 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does