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
GSM3761245	not_specified	M	NA	Conflict	0.32	7.99	0.00	44.66	19.01	108.27	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.890898	0.063458	0.043883	0.001761	95.82	3.70	0.39	94	LP2 (2026-09-30)	PASS	NonPolyA_perM 94 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761246	not_specified	F	NA	Conflict	188.24	0.01	0.00	0.14	0.01	0.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.88859	0.066937	0.042558	0.001915	95.53	3.94	0.41	100	LP2 (2026-09-30)	PASS	NonPolyA_perM 100 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761247	not_specified	M	NA	Conflict	0.36	7.82	0.00	42.15	16.48	103.68	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.878661	0.05693	0.040718	0.023691	93.19	6.23	0.47	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761248	not_specified	F	NA	Conflict	135.13	0.00	0.00	0.05	0.04	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.907137	0.050736	0.040035	0.002092	95.45	4.06	0.39	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761249	not_specified	F	NA	Conflict	159.08	0.00	0.00	0.02	0.01	0.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.905192	0.052913	0.040527	0.001368	94.70	4.85	0.32	81	LP2 (2026-09-30)	PASS	NonPolyA_perM 81 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761250	not_specified	F	NA	Conflict	193.63	0.03	0.00	0.00	0.02	0.24	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.896612	0.05635	0.044994	0.002043	96.25	3.34	0.33	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761251	not_specified	M	NA	Conflict	0.14	7.80	0.00	34.84	15.03	98.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912643	0.046206	0.038824	0.002327	94.88	4.68	0.32	74	LP2 (2026-09-30)	PASS	NonPolyA_perM 74 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761252	not_specified	M	NA	Conflict	0.16	5.51	0.00	27.98	14.29	92.69	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911491	0.041049	0.042105	0.005356	95.33	4.31	0.25	51	LP2 (2026-09-30)	PASS	NonPolyA_perM 51 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761253	not_specified	M	NA	Conflict	0.09	6.63	0.00	33.72	15.59	100.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.902944	0.04849	0.043216	0.005349	96.37	3.19	0.40	69	LP2 (2026-09-30)	PASS	NonPolyA_perM 69 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761254	not_specified	M	NA	Conflict	0.26	6.55	0.00	32.86	17.21	95.40	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.908663	0.04801	0.040739	0.002588	94.13	5.36	0.37	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761255	not_specified	F	NA	Conflict	44.74	0.00	0.00	0.05	0.03	0.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.921365	0.027899	0.042431	0.008305	92.78	6.57	0.49	47	LP2 (2026-09-30)	PASS	NonPolyA_perM 47 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM3761256	not_specified	F	NA	Conflict	125.90	0.02	0.00	0.05	0.00	0.17	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.913867	0.041961	0.039377	0.004795	94.42	5.09	0.36	52	LP2 (2026-09-30)	PASS	NonPolyA_perM 52 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does