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
GSM3426298	F	F	NA	Agree	58.87	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.900727	0.048012	0.048191	0.003071	96.39	2.52	0.87	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426299	F	F	NA	Agree	75.84	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.880353	0.053756	0.047002	0.018889	94.85	3.97	0.96	57	LP2 (2026-09-30)	PASS	NonPolyA_perM 57 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426300	F	F	NA	Agree	69.56	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.887732	0.056953	0.047426	0.007889	95.92	3.01	0.84	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426301	F	F	NA	Agree	65.47	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.891282	0.05676	0.048084	0.003874	96.37	2.60	0.81	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426302	F	F	NA	Agree	86.82	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.89007	0.060599	0.048006	0.001324	96.61	2.33	0.83	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426303	F	F	NA	Agree	63.71	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893338	0.053916	0.047246	0.0055	96.08	2.67	1.04	50	LP2 (2026-09-30)	PASS	NonPolyA_perM 50 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426304	F	F	NA	Agree	64.23	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886583	0.059669	0.049312	0.004437	96.27	2.67	0.84	65	LP2 (2026-09-30)	PASS	NonPolyA_perM 65 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426305	F	F	NA	Agree	52.75	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.89922	0.051511	0.048065	0.001204	96.63	2.35	0.81	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426306	F	F	NA	Agree	71.27	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.892931	0.056737	0.047016	0.003316	96.22	2.63	0.93	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426307	F	F	NA	Agree	76.52	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.896769	0.053482	0.047321	0.002428	96.25	2.50	1.04	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426308	F	F	NA	Agree	64.75	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894452	0.054053	0.049101	0.002394	96.33	2.43	1.03	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426309	F	F	NA	Agree	74.19	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894094	0.054538	0.047258	0.00411	96.28	2.64	0.85	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426310	F	F	NA	Agree	62.44	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901157	0.050244	0.047171	0.001428	96.62	2.31	0.87	44	LP2 (2026-09-30)	PASS	NonPolyA_perM 44 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426311	F	F	NA	Agree	65.28	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.895205	0.055434	0.047951	0.00141	96.55	2.36	0.88	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426312	F	F	NA	Agree	61.76	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.897332	0.052496	0.047116	0.003056	96.29	2.52	0.99	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426313	F	F	NA	Agree	69.92	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.891578	0.058149	0.048861	0.001412	96.65	2.34	0.80	67	LP2 (2026-09-30)	PASS	NonPolyA_perM 67 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426314	F	F	NA	Agree	75.23	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.891225	0.059561	0.047691	0.001523	96.59	2.39	0.79	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426315	F	F	NA	Agree	61.94	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893898	0.053852	0.048144	0.004106	96.18	2.68	0.92	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426316	F	F	NA	Agree	70.52	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.890153	0.056528	0.048107	0.005212	96.16	2.80	0.81	68	LP2 (2026-09-30)	PASS	NonPolyA_perM 68 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426317	F	F	NA	Agree	79.16	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.886815	0.062461	0.048529	0.002195	96.44	2.44	0.91	67	LP2 (2026-09-30)	PASS	NonPolyA_perM 67 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426318	F	F	NA	Agree	68.33	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894278	0.056612	0.046002	0.003108	96.39	2.64	0.76	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426319	F	F	NA	Agree	59.01	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.900364	0.049859	0.048453	0.001324	96.56	2.37	0.87	54	LP2 (2026-09-30)	PASS	NonPolyA_perM 54 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426320	F	F	NA	Agree	59.65	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.893018	0.056407	0.048666	0.001909	96.66	2.36	0.76	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3426321	F	F	NA	Agree	71.68	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901144	0.049979	0.047512	0.001365	96.55	2.48	0.76	56	LP2 (2026-09-30)	PASS	NonPolyA_perM 56 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does