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
GSM8928761	not_specified	F	NA	Conflict	205.68	0.03	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.503948	0.356505	0.042966	0.09658	83.45	11.33	4.65	1256	LP2 (2026-09-30)	PASS	NonPolyA_perM 1256 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928762	not_specified	F	NA	Conflict	130.47	0.00	0.00	0.02	0.00	0.04	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.32509	0.226678	0.027663	0.420569	53.11	41.45	5.01	1568	LP2 (2026-09-30)	PASS	NonPolyA_perM 1568 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928764	not_specified	F	NA	Conflict	82.32	0.02	0.00	0.02	0.02	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.340538	0.206589	0.028455	0.424419	52.08	41.68	5.75	1908	LP2 (2026-09-30)	PASS	NonPolyA_perM 1908 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928765	not_specified	M	NA	Conflict	0.24	16.03	0.00	54.73	19.09	59.31	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.632033	0.31656	0.045762	0.005644	91.25	3.67	4.34	1401	LP2 (2026-09-30)	PASS	NonPolyA_perM 1401 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928766	not_specified	F	NA	Conflict	147.69	0.00	0.00	0.02	0.00	0.04	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.603557	0.33431	0.042279	0.019854	90.87	4.59	3.95	1613	LP2 (2026-09-30)	PASS	NonPolyA_perM 1613 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928767	not_specified	F	NA	Conflict	105.59	0.00	0.00	0.02	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.566347	0.292372	0.041623	0.099659	82.63	12.34	4.31	1996	LP2 (2026-09-30)	PASS	NonPolyA_perM 1996 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928769	not_specified	M	NA	Conflict	0.40	18.08	0.00	56.11	20.20	57.88	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.562286	0.386396	0.046784	0.004534	92.60	3.40	3.30	1597	LP2 (2026-09-30)	PASS	NonPolyA_perM 1597 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928770	not_specified	F	NA	Conflict	254.49	7.52	0.00	21.46	6.95	14.06	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.525975	0.420902	0.045264	0.007859	91.77	3.60	4.04	1436	LP2 (2026-09-30)	PASS	NonPolyA_perM 1436 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928771	not_specified	F	NA	Conflict	59.90	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.196637	0.114972	0.018641	0.66975	28.47	62.49	8.73	1803	LP2 (2026-09-30)	LOW_MAPPING	NonPolyA_perM 1803 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928772	not_specified	M	NA	Conflict	0.31	17.22	0.00	45.97	15.00	47.75	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.374277	0.285902	0.03245	0.307371	60.05	29.66	9.85	1234	LP2 (2026-09-30)	PASS	NonPolyA_perM 1234 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928774	not_specified	Undetermined	NA	Conflict	6.55	0.99	0.00	2.37	0.64	1.97	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.052358	0.037449	0.007228	0.902965	8.15	79.29	12.37	1374	LP2 (2026-09-30)	LOW_MAPPING	NonPolyA_perM 1374 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928775	not_specified	F	NA	Conflict	117.53	0.00	0.00	0.22	0.08	0.13	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.505358	0.273145	0.037421	0.184075	72.54	19.61	7.32	1488	LP2 (2026-09-30)	PASS	NonPolyA_perM 1488 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928776	not_specified	M	NA	Conflict	0.43	18.39	0.00	58.94	19.74	53.91	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.497453	0.330809	0.0408	0.130938	80.43	14.82	4.13	1592	LP2 (2026-09-30)	PASS	NonPolyA_perM 1592 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928777	not_specified	F	NA	Conflict	147.71	0.02	0.00	0.01	0.00	0.03	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.289296	0.227307	0.027277	0.456119	49.40	44.26	5.93	1339	LP2 (2026-09-30)	LOW_MAPPING	NonPolyA_perM 1339 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928779	not_specified	F	NA	Conflict	251.29	0.00	0.00	0.03	0.03	0.11	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.493209	0.38017	0.043561	0.08306	85.34	10.20	3.84	1311	LP2 (2026-09-30)	PASS	NonPolyA_perM 1311 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928780	not_specified	F	NA	Conflict	140.47	0.01	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.481845	0.274652	0.038572	0.204931	73.05	22.49	3.85	1979	LP2 (2026-09-30)	PASS	NonPolyA_perM 1979 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928781	not_specified	F	NA	Conflict	276.83	0.00	0.00	0.00	0.00	0.09	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.525257	0.371727	0.044607	0.058409	86.48	8.09	4.82	1415	LP2 (2026-09-30)	PASS	NonPolyA_perM 1415 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928782	not_specified	F	NA	Conflict	332.29	0.00	0.00	0.06	0.03	0.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.515434	0.437042	0.044151	0.003373	92.14	2.51	4.69	1410	LP2 (2026-09-30)	PASS	NonPolyA_perM 1410 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928783	not_specified	M	NA	Conflict	0.26	13.41	0.00	50.34	17.28	55.19	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.62773	0.310946	0.053467	0.007857	91.22	4.30	3.54	2214	LP2 (2026-09-30)	PASS	NonPolyA_perM 2214 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928785	not_specified	Undetermined	NA	Conflict	73.16	6.09	0.00	25.21	7.00	24.40	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.531805	0.298097	0.042453	0.127645	79.69	14.45	5.24	1346	LP2 (2026-09-30)	PASS	NonPolyA_perM 1346 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928786	not_specified	Undetermined	NA	Conflict	83.33	7.40	0.00	30.56	8.45	44.72	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.613113	0.331081	0.047939	0.007867	92.01	3.72	3.59	1416	LP2 (2026-09-30)	PASS	NonPolyA_perM 1416 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928787	not_specified	F	NA	Conflict	134.73	0.00	0.00	0.02	0.02	0.04	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.631821	0.305278	0.049908	0.012993	90.99	4.80	3.47	1835	LP2 (2026-09-30)	PASS	NonPolyA_perM 1835 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8928788	not_specified	M	NA	Conflict	0.20	16.26	0.00	54.42	19.12	56.39	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.565669	0.327787	0.044158	0.062386	86.71	8.56	4.06	1483	LP2 (2026-09-30)	PASS	NonPolyA_perM 1483 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not