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
GSM5047894	M	M	NA	Agree	0.14	8.21	0.00	46.23	18.03	95.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.852654	0.095904	0.051308	0.000134	98.43	1.45	0.06	87	LP2 (2026-09-30)	PASS	NonPolyA_perM 87 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047895	M	M	NA	Agree	0.13	9.07	0.00	47.73	19.02	101.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.850952	0.099207	0.049739	0.000102	98.44	1.43	0.06	101	LP2 (2026-09-30)	PASS	NonPolyA_perM 101 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047896	M	M	NA	Agree	0.10	8.92	0.00	47.27	18.21	91.89	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.849793	0.10152	0.04859	0.000096	98.41	1.47	0.06	91	LP2 (2026-09-30)	PASS	NonPolyA_perM 91 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047897	M	M	NA	Agree	0.07	8.29	0.00	45.25	17.36	99.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.865884	0.087932	0.046109	0.000074	98.27	1.61	0.05	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047898	M	M	NA	Agree	0.17	8.33	0.00	52.79	18.43	105.85	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.856366	0.093111	0.05043	0.000093	98.49	1.39	0.06	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047899	M	M	NA	Agree	0.18	8.13	0.00	46.41	18.65	92.02	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.845752	0.104032	0.049755	0.000461	98.47	1.40	0.06	88	LP2 (2026-09-30)	PASS	NonPolyA_perM 88 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047900	M	M	NA	Agree	0.09	9.64	0.00	50.36	17.28	103.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.858953	0.094382	0.046574	0.000091	98.23	1.64	0.05	103	LP2 (2026-09-30)	PASS	NonPolyA_perM 103 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047901	M	M	NA	Agree	0.11	8.00	0.00	53.18	19.94	100.55	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.858407	0.094298	0.047211	0.000084	98.23	1.64	0.05	82	LP2 (2026-09-30)	PASS	NonPolyA_perM 82 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047902	M	M	NA	Agree	0.19	8.60	0.00	51.40	19.57	96.78	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.855556	0.096865	0.047493	0.000085	98.21	1.65	0.05	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047903	M	M	NA	Agree	0.19	7.76	0.00	50.33	18.01	88.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.839857	0.113674	0.046254	0.000215	98.69	1.17	0.08	80	LP2 (2026-09-30)	PASS	NonPolyA_perM 80 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047904	M	M	NA	Agree	0.12	7.93	0.00	53.16	18.25	79.84	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.835294	0.116054	0.048423	0.000228	98.69	1.16	0.08	84	LP2 (2026-09-30)	PASS	NonPolyA_perM 84 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047905	M	M	NA	Agree	0.09	6.73	0.00	47.74	16.95	76.87	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.855359	0.10119	0.043265	0.000186	98.67	1.20	0.07	73	LP2 (2026-09-30)	PASS	NonPolyA_perM 73 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047906	M	M	NA	Agree	0.21	8.03	0.00	50.36	17.66	85.57	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.848702	0.106844	0.044165	0.000288	98.62	1.25	0.07	94	LP2 (2026-09-30)	PASS	NonPolyA_perM 94 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047907	M	M	NA	Agree	0.18	7.69	0.00	48.54	17.65	78.15	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.827897	0.117356	0.054289	0.000459	98.53	1.32	0.11	85	LP2 (2026-09-30)	PASS	NonPolyA_perM 85 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047908	M	M	NA	Agree	0.22	7.66	0.00	54.38	17.33	89.22	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.842719	0.111133	0.044955	0.001194	98.56	1.31	0.07	75	LP2 (2026-09-30)	PASS	NonPolyA_perM 75 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047909	M	M	NA	Agree	0.14	7.78	0.00	50.34	18.43	87.23	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.850157	0.105957	0.043692	0.000194	98.45	1.42	0.07	93	LP2 (2026-09-30)	PASS	NonPolyA_perM 93 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047910	M	Undetermined	NA	Conflict	65.67	8.01	0.00	50.27	15.74	85.60	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.844028	0.109827	0.045957	0.000188	98.63	1.24	0.07	69	LP2 (2026-09-30)	PASS	NonPolyA_perM 69 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5047911	M	M	NA	Agree	0.22	7.99	0.00	58.71	18.95	86.05	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.849643	0.106033	0.044143	0.000182	98.43	1.44	0.07	89	LP2 (2026-09-30)	PASS	NonPolyA_perM 89 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does