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
GSM3574340	M	M	NA	Agree	0.00	11.44	0.00	59.26	11.24	107.68	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.926257	0.046512	0.025239	0.001992	92.73	2.60	4.48	60	LP2 (2026-09-30)	PASS	NonPolyA_perM 60 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574341	M	M	NA	Agree	0.03	10.01	0.00	52.12	12.28	91.77	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.923799	0.048313	0.025523	0.002365	91.03	2.46	6.33	67	LP2 (2026-09-30)	PASS	NonPolyA_perM 67 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574342	M	M	NA	Agree	0.04	19.09	0.00	106.08	15.43	178.03	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.93403	0.042622	0.02261	0.000738	95.94	1.95	1.93	54	LP2 (2026-09-30)	PASS	NonPolyA_perM 54 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574343	M	M	NA	Agree	0.02	9.09	0.00	48.52	9.98	132.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.938745	0.03481	0.025362	0.001083	95.03	2.39	2.39	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574344	M	M	NA	Agree	0.00	19.73	0.00	111.44	16.48	152.94	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.917279	0.053233	0.02861	0.000878	93.23	2.37	4.15	62	LP2 (2026-09-30)	PASS	NonPolyA_perM 62 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574345	M	M	NA	Agree	0.00	6.95	0.00	36.09	8.19	50.63	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.927614	0.047973	0.023659	0.000755	93.93	2.85	2.95	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574346	M	M	NA	Agree	0.00	10.86	0.00	56.32	15.28	110.42	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.925503	0.046826	0.025802	0.00187	93.52	2.71	3.50	43	LP2 (2026-09-30)	PASS	NonPolyA_perM 43 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574347	M	M	NA	Agree	0.01	19.79	0.00	96.32	14.52	168.54	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.926508	0.046619	0.026002	0.000872	91.80	2.23	5.74	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574348	M	M	NA	Agree	0.00	6.83	0.00	33.71	9.22	50.12	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.933253	0.042813	0.023312	0.000621	93.68	2.79	3.27	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574349	M	M	NA	Agree	0.00	17.30	0.00	83.76	13.29	131.81	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.927797	0.042543	0.024933	0.004727	94.78	2.67	2.34	52	LP2 (2026-09-30)	PASS	NonPolyA_perM 52 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574350	M	M	NA	Agree	0.02	26.63	0.00	132.25	16.07	220.28	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.929548	0.045098	0.024803	0.000552	94.35	2.04	3.41	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574351	M	M	NA	Agree	0.03	27.33	0.00	125.93	16.68	243.96	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.941901	0.036488	0.021364	0.000246	94.77	1.77	3.28	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574352	M	M	NA	Agree	0.03	25.77	0.00	113.21	15.47	187.25	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.930423	0.04505	0.024005	0.000522	94.09	1.93	3.78	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574353	M	M	NA	Agree	0.02	23.53	0.00	116.92	15.09	180.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.930939	0.043569	0.025122	0.000369	94.25	2.04	3.51	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574354	M	M	NA	Agree	0.02	14.65	0.00	72.29	15.08	120.77	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.931304	0.04487	0.023035	0.000791	77.03	1.79	21.01	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3574355	M	M	NA	Agree	0.00	16.34	0.00	101.90	15.60	80.77	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.922145	0.050248	0.025478	0.002128	89.97	2.23	7.62	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does