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 (2026-11-04) 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
GSM8689043	M	M	NA	Agree	0.03	5.29	0.00	22.08	5.01	20.56	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.725888	0.166588	0.056899	0.050625	84.92	9.04	5.73	1479	LP2 (2026-09-30)	PASS	NonPolyA_perM 1479 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689044	M	M	NA	Agree	0.02	4.78	0.00	19.05	4.44	18.76	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.714468	0.212271	0.068405	0.004856	88.60	5.54	5.48	2422	LP2 (2026-09-30)	PASS	NonPolyA_perM 2422 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689045	M	M	NA	Agree	0.00	2.87	0.00	12.18	2.57	13.22	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.640333	0.097136	0.066376	0.196155	69.69	24.06	5.92	4507	LP2 (2026-09-30)	PASS	NonPolyA_perM 4507 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689046	M	M	NA	Agree	0.02	5.17	0.00	19.88	5.05	19.05	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.733679	0.195428	0.062625	0.008267	89.48	5.13	5.09	1515	LP2 (2026-09-30)	PASS	NonPolyA_perM 1515 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689047	M	M	NA	Agree	0.03	4.11	0.00	17.10	4.81	16.69	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.704296	0.227097	0.064142	0.004465	90.01	5.20	4.47	2009	LP2 (2026-09-30)	PASS	NonPolyA_perM 2009 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689048	M	M	NA	Agree	0.05	5.55	0.00	18.32	5.30	18.69	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.694409	0.233445	0.066847	0.005299	89.23	5.30	5.11	2082	LP2 (2026-09-30)	PASS	NonPolyA_perM 2082 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689049	M	M	NA	Agree	0.04	5.38	0.00	21.23	5.32	20.56	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.743006	0.183921	0.067915	0.005158	89.33	5.33	5.03	1580	LP2 (2026-09-30)	PASS	NonPolyA_perM 1580 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689050	M	M	NA	Agree	0.08	4.63	0.00	18.35	4.47	17.87	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.702545	0.230937	0.061546	0.004971	90.17	4.57	4.92	1596	LP2 (2026-09-30)	PASS	NonPolyA_perM 1596 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689051	M	M	NA	Agree	0.02	4.51	0.00	16.64	4.15	16.88	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.700035	0.220739	0.073684	0.005542	88.84	5.63	5.15	2683	LP2 (2026-09-30)	PASS	NonPolyA_perM 2683 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689052	M	M	NA	Agree	0.02	8.23	0.00	24.80	7.00	29.84	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.65951	0.270437	0.064412	0.005641	89.43	4.44	5.80	788	LP2 (2026-09-30)	PASS	NonPolyA_perM 788 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689053	M	M	NA	Agree	0.03	5.59	0.00	19.82	5.04	18.13	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.729253	0.198047	0.068384	0.004316	89.00	5.70	4.91	2548	LP2 (2026-09-30)	PASS	NonPolyA_perM 2548 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689054	M	M	NA	Agree	0.02	11.56	0.00	25.23	8.79	38.31	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.645943	0.287329	0.057467	0.009262	85.85	5.33	8.50	1027	LP2 (2026-09-30)	PASS	NonPolyA_perM 1027 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689055	M	M	NA	Agree	0.03	5.29	0.00	21.83	5.49	20.34	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.71449	0.22213	0.058837	0.004543	90.25	5.24	4.15	1828	LP2 (2026-09-30)	PASS	NonPolyA_perM 1828 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689056	M	M	NA	Agree	0.04	4.85	0.00	17.72	5.16	18.52	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.734272	0.187125	0.073551	0.005052	89.81	6.02	3.80	2677	LP2 (2026-09-30)	PASS	NonPolyA_perM 2677 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689057	M	M	NA	Agree	0.02	4.23	0.00	18.62	4.44	16.90	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.745112	0.178432	0.072132	0.004324	89.18	6.07	4.39	2563	LP2 (2026-09-30)	PASS	NonPolyA_perM 2563 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689058	M	M	NA	Agree	0.03	6.42	0.00	25.20	5.60	20.00	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.723616	0.213008	0.058596	0.00478	90.93	4.77	3.97	1609	LP2 (2026-09-30)	PASS	NonPolyA_perM 1609 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689059	M	M	NA	Agree	0.03	4.43	0.00	18.87	4.32	17.66	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.73903	0.191076	0.065214	0.00468	89.48	5.84	4.31	2565	LP2 (2026-09-30)	PASS	NonPolyA_perM 2565 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689060	M	M	NA	Agree	0.06	5.52	0.00	22.35	5.34	19.99	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.729335	0.205041	0.060744	0.004881	90.42	4.97	4.27	1893	LP2 (2026-09-30)	PASS	NonPolyA_perM 1893 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689061	M	M	NA	Agree	0.06	5.28	0.00	22.56	5.99	21.45	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.724926	0.210149	0.0603	0.004624	91.12	4.82	3.75	1683	LP2 (2026-09-30)	PASS	NonPolyA_perM 1683 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689062	M	M	NA	Agree	0.04	5.64	0.00	21.90	5.21	21.07	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.712687	0.214436	0.067209	0.005668	89.42	5.58	4.60	2344	LP2 (2026-09-30)	PASS	NonPolyA_perM 2344 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689063	M	M	NA	Agree	0.04	5.96	0.00	23.09	6.14	23.13	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.723012	0.211358	0.062084	0.003547	90.93	4.75	3.97	1727	LP2 (2026-09-30)	PASS	NonPolyA_perM 1727 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689064	M	M	NA	Agree	0.03	6.45	0.00	25.59	5.82	23.89	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.751091	0.179195	0.064917	0.004797	90.65	4.85	4.17	1831	LP2 (2026-09-30)	PASS	NonPolyA_perM 1831 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689065	M	M	NA	Agree	0.02	5.26	0.00	23.45	5.50	20.93	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.740925	0.185452	0.068219	0.005404	90.76	5.20	3.70	2248	LP2 (2026-09-30)	PASS	NonPolyA_perM 2248 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689066	M	M	NA	Agree	0.03	6.98	0.00	26.86	7.26	27.85	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.758614	0.174294	0.0611	0.005992	90.60	4.84	4.20	1778	LP2 (2026-09-30)	PASS	NonPolyA_perM 1778 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689067	M	M	NA	Agree	0.02	4.08	0.00	18.38	4.22	19.09	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.738173	0.185475	0.070602	0.005749	89.69	6.08	3.87	2478	LP2 (2026-09-30)	PASS	NonPolyA_perM 2478 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689068	M	M	NA	Agree	0.05	5.75	0.00	20.36	5.42	19.53	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.73391	0.191684	0.069603	0.004804	90.29	5.62	3.72	2634	LP2 (2026-09-30)	PASS	NonPolyA_perM 2634 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689069	M	M	NA	Agree	0.03	4.69	0.00	23.26	4.67	19.30	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.738177	0.191501	0.065985	0.004337	90.38	5.58	3.67	2050	LP2 (2026-09-30)	PASS	NonPolyA_perM 2050 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689070	M	M	NA	Agree	0.03	5.70	0.00	23.17	4.86	21.61	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.724454	0.203566	0.067234	0.004745	90.23	5.09	4.32	2264	LP2 (2026-09-30)	PASS	NonPolyA_perM 2264 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689071	M	M	NA	Agree	0.03	5.53	0.00	22.35	4.91	18.79	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.747959	0.181095	0.066537	0.00441	90.02	5.29	4.30	2071	LP2 (2026-09-30)	PASS	NonPolyA_perM 2071 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689072	M	M	NA	Agree	0.02	4.52	0.00	21.35	4.89	20.65	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.722066	0.208396	0.064255	0.005284	90.63	5.02	4.02	1990	LP2 (2026-09-30)	PASS	NonPolyA_perM 1990 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689073	M	M	NA	Agree	0.06	6.04	0.00	29.82	5.32	24.99	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.715735	0.220134	0.059718	0.004413	90.16	4.70	4.78	1937	LP2 (2026-09-30)	PASS	NonPolyA_perM 1937 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689074	M	M	NA	Agree	0.05	4.16	0.00	21.02	3.31	16.47	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.728675	0.189319	0.076835	0.00517	88.15	6.85	4.54	3035	LP2 (2026-09-30)	PASS	NonPolyA_perM 3035 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689075	M	M	NA	Agree	0.05	7.26	0.00	28.71	7.10	24.62	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.74792	0.190046	0.057212	0.004822	91.24	4.18	4.27	1233	LP2 (2026-09-30)	PASS	NonPolyA_perM 1233 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689076	M	M	NA	Agree	0.04	7.58	0.00	28.09	5.87	24.48	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.735648	0.20105	0.059825	0.003477	90.46	4.66	4.51	1911	LP2 (2026-09-30)	PASS	NonPolyA_perM 1911 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689077	M	M	NA	Agree	0.07	6.34	0.00	26.29	5.40	21.63	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.719773	0.212332	0.062107	0.005788	90.70	5.30	3.55	2333	LP2 (2026-09-30)	PASS	NonPolyA_perM 2333 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689078	M	M	NA	Agree	0.01	1.25	0.00	9.23	2.50	9.29	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.679793	0.16574	0.123711	0.030755	71.69	15.24	12.30	4313	LP2 (2026-09-30)	PASS	NonPolyA_perM 4313 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689079	M	M	NA	Agree	0.04	10.19	0.00	39.60	8.69	32.45	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.720757	0.22372	0.047162	0.008361	90.12	3.61	5.92	920	LP2 (2026-09-30)	PASS	NonPolyA_perM 920 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689080	M	M	NA	Agree	0.04	5.10	0.00	22.61	3.56	18.16	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.710199	0.217503	0.065905	0.006393	89.54	6.06	4.01	2375	LP2 (2026-09-30)	PASS	NonPolyA_perM 2375 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689081	M	M	NA	Agree	0.02	9.70	0.00	51.57	6.91	32.03	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.746731	0.200418	0.051274	0.001577	90.35	3.58	5.64	951	LP2 (2026-09-30)	PASS	NonPolyA_perM 951 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not
GSM8689082	M	M	NA	Agree	0.06	5.88	0.00	24.32	5.29	20.09	SECOND_READ_TRANSCRIPTION_STRAND	RRNA_DEPLETED	0.706402	0.223053	0.064791	0.005754	90.47	4.73	4.46	2004	LP2 (2026-09-30)	PASS	NonPolyA_perM 2004 >= 700: non-polyadenylated small RNAs retained, as rRNA depletion does and oligo-dT selection does not