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
GSM4513749	not_specified	M	NA	Conflict	0.03	4.06	0.00	22.53	16.27	70.47	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.906135	0.054835	0.036596	0.002434	94.25	4.47	1.03	109	LP2 (2026-09-30)	PASS	NonPolyA_perM 109 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513750	not_specified	M	NA	Conflict	0.21	2.96	0.00	20.08	16.88	65.55	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.905322	0.055041	0.038085	0.001552	93.48	4.41	1.84	96	LP2 (2026-09-30)	PASS	NonPolyA_perM 96 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513751	not_specified	F	NA	Conflict	66.56	0.02	0.00	0.03	0.01	0.15	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.904903	0.054734	0.037318	0.003045	90.10	4.38	5.32	118	LP2 (2026-09-30)	PASS	NonPolyA_perM 118 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513752	not_specified	M	NA	Conflict	0.06	2.49	0.00	19.24	12.92	49.12	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.914698	0.047041	0.03363	0.004631	93.85	4.84	1.05	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513753	not_specified	M	NA	Conflict	0.24	3.42	0.00	22.87	15.02	59.23	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.908972	0.05485	0.034406	0.001772	94.53	4.44	0.75	101	LP2 (2026-09-30)	PASS	NonPolyA_perM 101 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513754	not_specified	F	NA	Conflict	53.88	0.00	0.00	0.09	0.07	0.30	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.915658	0.046876	0.035064	0.002402	93.83	4.88	1.00	100	LP2 (2026-09-30)	PASS	NonPolyA_perM 100 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513755	not_specified	Undetermined	NA	Conflict	16.76	1.48	0.00	10.75	9.03	36.06	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.907487	0.053161	0.036038	0.003315	94.07	4.62	1.06	88	LP2 (2026-09-30)	PASS	NonPolyA_perM 88 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513756	not_specified	M	NA	Conflict	0.05	3.63	0.00	18.30	14.43	70.12	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.91244	0.0498	0.034612	0.003147	94.11	4.60	1.03	93	LP2 (2026-09-30)	PASS	NonPolyA_perM 93 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513757	not_specified	F	NA	Conflict	52.75	0.02	0.00	0.07	0.05	0.28	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.917341	0.045813	0.032607	0.004239	93.69	4.86	1.20	83	LP2 (2026-09-30)	PASS	NonPolyA_perM 83 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513758	not_specified	M	NA	Conflict	0.02	3.84	0.00	21.53	15.23	53.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.897762	0.064265	0.034256	0.003717	94.59	4.45	0.70	95	LP2 (2026-09-30)	PASS	NonPolyA_perM 95 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513759	not_specified	F	NA	Conflict	26.11	0.00	0.00	0.09	0.02	0.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.914269	0.048578	0.034093	0.00306	93.93	4.98	0.74	94	LP2 (2026-09-30)	PASS	NonPolyA_perM 94 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513760	not_specified	M	NA	Conflict	0.39	3.84	0.00	19.05	14.70	71.86	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911552	0.05032	0.034611	0.003517	92.23	4.80	2.02	85	LP2 (2026-09-30)	PASS	NonPolyA_perM 85 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513761	not_specified	F	NA	Conflict	138.57	0.00	0.00	0.00	0.01	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893683	0.065079	0.035656	0.005583	94.33	4.47	0.94	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513762	not_specified	F	NA	Conflict	60.75	0.00	0.00	0.03	0.02	0.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898355	0.062072	0.037204	0.002368	93.41	4.30	2.04	111	LP2 (2026-09-30)	PASS	NonPolyA_perM 111 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513763	not_specified	M	NA	Conflict	1.61	5.87	0.00	24.65	15.60	99.34	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893578	0.056326	0.044109	0.005986	91.81	5.11	2.80	131	LP2 (2026-09-30)	PASS	NonPolyA_perM 131 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513764	not_specified	M	NA	Conflict	0.10	3.98	0.00	21.41	15.88	65.45	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.905088	0.055629	0.035941	0.003342	94.64	4.43	0.67	97	LP2 (2026-09-30)	PASS	NonPolyA_perM 97 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513765	not_specified	F	NA	Conflict	35.93	0.00	0.00	0.02	0.01	0.03	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.917754	0.045642	0.034709	0.001895	93.90	4.37	1.48	90	LP2 (2026-09-30)	PASS	NonPolyA_perM 90 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513766	not_specified	F	NA	Conflict	42.32	0.01	0.00	0.02	0.00	0.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912873	0.049166	0.034996	0.002964	90.64	4.76	4.35	97	LP2 (2026-09-30)	PASS	NonPolyA_perM 97 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513767	not_specified	F	NA	Conflict	62.08	0.00	0.00	0.00	0.00	0.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.905811	0.053718	0.036159	0.004312	92.88	4.86	2.00	87	LP2 (2026-09-30)	PASS	NonPolyA_perM 87 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513768	not_specified	F	NA	Conflict	55.95	0.00	0.00	0.00	0.04	0.09	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.907283	0.053278	0.036186	0.003253	93.77	4.45	1.55	83	LP2 (2026-09-30)	PASS	NonPolyA_perM 83 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513769	not_specified	M	NA	Conflict	0.33	5.37	0.00	27.45	17.80	82.80	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894104	0.062751	0.04083	0.002315	88.92	4.19	6.66	123	LP2 (2026-09-30)	PASS	NonPolyA_perM 123 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513770	not_specified	F	NA	Conflict	43.16	0.01	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.915286	0.047007	0.034054	0.003652	94.06	4.72	0.96	76	LP2 (2026-09-30)	PASS	NonPolyA_perM 76 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513771	not_specified	F	NA	Conflict	57.61	0.00	0.00	0.11	0.04	0.03	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.903404	0.059319	0.035627	0.001651	94.72	4.23	0.78	100	LP2 (2026-09-30)	PASS	NonPolyA_perM 100 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4513772	not_specified	M	NA	Conflict	0.10	4.12	0.00	22.54	14.24	75.92	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901911	0.055399	0.036866	0.005824	91.80	4.91	3.05	99	LP2 (2026-09-30)	PASS	NonPolyA_perM 99 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does