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 (2026-10-21) 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
GSM4817284	F	F	NA	Agree	66.71	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.582005	0.35297	0.063133	0.001893	56.14	2.93	40.13	3136	LP2 (2026-09-30)	PASS	NonPolyA_perM 3136 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817285	F	F	NA	Agree	18.28	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.625474	0.278966	0.093397	0.002163	56.78	5.54	36.83	8524	LP2 (2026-09-30)	PASS	NonPolyA_perM 8524 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817286	F	F	NA	Agree	15.40	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.633882	0.258332	0.096568	0.011218	47.17	6.28	45.52	10204	LP2 (2026-09-30)	PASS	NonPolyA_perM 10204 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817287	F	F	NA	Agree	9.25	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.659929	0.206113	0.123086	0.010872	43.55	8.12	47.12	15178	LP2 (2026-09-30)	PASS	NonPolyA_perM 15178 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817289	M	M	NA	Agree	0.10	4.90	0.00	12.41	6.78	11.65	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.57315	0.321971	0.089642	0.015238	55.25	6.37	37.57	7487	LP2 (2026-09-30)	PASS	NonPolyA_perM 7487 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817290	F	F	NA	Agree	11.44	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.618075	0.257913	0.114525	0.009487	49.18	7.44	42.20	13767	LP2 (2026-09-30)	PASS	NonPolyA_perM 13767 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817291	F	F	NA	Agree	9.62	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.702561	0.164212	0.12356	0.009667	52.02	9.91	36.66	13869	LP2 (2026-09-30)	PASS	NonPolyA_perM 13869 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817292	F	F	NA	Agree	54.88	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.62523	0.298605	0.061171	0.014994	47.92	4.09	47.07	4739	LP2 (2026-09-30)	PASS	NonPolyA_perM 4739 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817293	F	F	NA	Agree	41.41	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.565723	0.361637	0.071761	0.000878	53.24	3.33	42.70	5198	LP2 (2026-09-30)	PASS	NonPolyA_perM 5198 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817294	F	F	NA	Agree	71.93	0.00	0.00	0.24	0.00	0.06	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.583122	0.354706	0.061023	0.001149	53.08	2.83	43.28	3843	LP2 (2026-09-30)	PASS	NonPolyA_perM 3843 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817295	F	F	NA	Agree	23.92	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.574536	0.331098	0.086351	0.008015	49.43	4.68	45.13	7403	LP2 (2026-09-30)	PASS	NonPolyA_perM 7403 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817298	F	F	NA	Agree	23.05	0.00	0.00	0.03	0.00	0.03	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.640683	0.270326	0.087345	0.001645	53.41	4.97	40.77	7295	LP2 (2026-09-30)	PASS	NonPolyA_perM 7295 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817299	F	F	NA	Agree	34.39	0.00	0.00	0.18	0.02	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.617811	0.296934	0.070773	0.014481	48.40	5.38	45.28	6041	LP2 (2026-09-30)	PASS	NonPolyA_perM 6041 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817300	F	F	NA	Agree	22.49	0.02	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.642708	0.264817	0.087528	0.004947	59.10	6.38	33.65	7058	LP2 (2026-09-30)	PASS	NonPolyA_perM 7058 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817301	F	F	NA	Agree	36.51	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.609659	0.317176	0.07191	0.001255	60.70	4.29	34.15	4060	LP2 (2026-09-30)	PASS	NonPolyA_perM 4060 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817302	M	M	NA	Agree	0.48	7.87	0.00	25.86	10.12	25.18	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.59645	0.324171	0.077898	0.001481	63.84	4.83	30.46	5185	LP2 (2026-09-30)	PASS	NonPolyA_perM 5185 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817303	M	M	NA	Agree	0.05	6.90	0.00	20.69	7.86	21.80	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.592857	0.30638	0.085693	0.015071	59.49	6.53	33.13	5883	LP2 (2026-09-30)	PASS	NonPolyA_perM 5883 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817304	F	F	NA	Agree	26.46	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.64713	0.263547	0.086823	0.002501	53.27	5.18	40.75	7077	LP2 (2026-09-30)	PASS	NonPolyA_perM 7077 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817305	F	F	NA	Agree	9.97	0.00	0.00	0.00	0.00	0.01	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.734269	0.144589	0.117251	0.003891	59.75	9.04	30.24	10841	LP2 (2026-09-30)	PASS	NonPolyA_perM 10841 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817306	F	F	NA	Agree	42.37	0.00	0.00	0.00	0.00	0.04	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.594191	0.330973	0.073667	0.001169	51.50	3.92	43.52	6165	LP2 (2026-09-30)	PASS	NonPolyA_perM 6165 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817308	F	F	NA	Agree	14.89	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.653232	0.236826	0.103257	0.006685	44.52	6.11	48.45	9605	LP2 (2026-09-30)	PASS	NonPolyA_perM 9605 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817309	F	F	NA	Agree	41.82	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.55963	0.360239	0.079222	0.000909	56.03	4.02	39.10	5922	LP2 (2026-09-30)	PASS	NonPolyA_perM 5922 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817310	F	F	NA	Agree	49.82	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.606206	0.322444	0.070155	0.001195	57.63	3.86	37.70	4452	LP2 (2026-09-30)	PASS	NonPolyA_perM 4452 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM4817311	F	F	NA	Agree	19.67	0.00	0.00	0.00	0.00	0.02	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.70343	0.196719	0.082048	0.017804	57.07	7.05	35.10	6668	LP2 (2026-09-30)	PASS	NonPolyA_perM 6668 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not