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). For 12 samples processed before workflow 2.1, ComputedSex is the earlier curated call, kept after review where it differed from the rule above.
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
GSM7055187	F	F	NA	Agree	1.81	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.904855	0.030946	0.045811	0.018388	89.34	6.03	4.34	174	LP2 (2026-09-30)	PASS	NonPolyA_perM 174 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055188	M	M	NA	Agree	0.00	5.91	0.00	25.07	3.10	139.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.90621	0.034411	0.044908	0.01447	90.92	5.25	3.60	126	LP2 (2026-09-30)	PASS	NonPolyA_perM 126 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055189	M	M	NA	Agree	0.00	6.12	0.00	27.02	6.03	127.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912412	0.03163	0.045499	0.010459	91.98	4.55	3.26	97	LP2 (2026-09-30)	PASS	NonPolyA_perM 97 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055190	F	F	NA	Agree	4.10	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.925153	0.025093	0.042003	0.007751	93.16	3.88	2.77	65	LP2 (2026-09-30)	PASS	NonPolyA_perM 65 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055191	F	F	NA	Agree	5.58	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.920078	0.027274	0.042942	0.009707	92.64	4.23	2.92	69	LP2 (2026-09-30)	PASS	NonPolyA_perM 69 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055192	M	M	NA	Agree	0.00	6.07	0.00	22.13	3.24	128.21	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.91767	0.029053	0.045359	0.007918	91.83	4.58	3.39	91	LP2 (2026-09-30)	PASS	NonPolyA_perM 91 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055193	M	M	NA	Agree	0.00	5.73	0.00	22.79	1.94	163.76	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.910789	0.029533	0.042472	0.017206	90.77	5.68	3.31	108	LP2 (2026-09-30)	PASS	NonPolyA_perM 108 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055194	F	F	NA	Agree	0.96	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.921667	0.029068	0.041517	0.007748	91.14	4.87	3.75	118	LP2 (2026-09-30)	PASS	NonPolyA_perM 118 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055195	M	M	NA	Agree	0.00	5.34	0.00	15.94	1.25	178.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911776	0.027498	0.039768	0.020959	90.73	5.82	3.19	103	LP2 (2026-09-30)	PASS	NonPolyA_perM 103 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055196	F	F	NA	Agree	3.84	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.881918	0.051425	0.054256	0.012401	89.79	5.46	4.52	147	LP2 (2026-09-30)	PASS	NonPolyA_perM 147 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055197	F	F	NA	Agree	3.45	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.917777	0.026593	0.044444	0.011186	92.23	4.34	3.21	79	LP2 (2026-09-30)	PASS	NonPolyA_perM 79 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055198	M	M	NA	Agree	0.00	6.14	0.00	26.22	2.04	175.93	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.918953	0.027692	0.041717	0.011638	90.55	5.20	3.96	119	LP2 (2026-09-30)	PASS	NonPolyA_perM 119 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055199	F	F	NA	Agree	1.12	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.925696	0.026727	0.039297	0.00828	91.51	4.69	3.52	101	LP2 (2026-09-30)	PASS	NonPolyA_perM 101 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055200	M	M	NA	Agree	0.00	2.98	0.00	16.86	0.69	112.98	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.898962	0.039976	0.046407	0.014656	87.54	6.60	5.51	159	LP2 (2026-09-30)	PASS	NonPolyA_perM 159 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055201	M	M	NA	Agree	0.00	4.46	0.00	17.02	1.26	170.97	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911591	0.027282	0.039732	0.021395	90.19	6.11	3.47	129	LP2 (2026-09-30)	PASS	NonPolyA_perM 129 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055202	F	F	NA	Agree	0.32	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.916117	0.03152	0.039155	0.013207	89.41	5.82	4.49	133	LP2 (2026-09-30)	PASS	NonPolyA_perM 133 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055203	F	F	NA	Agree	1.04	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.908482	0.03569	0.046645	0.009183	89.49	5.25	4.99	151	LP2 (2026-09-30)	PASS	NonPolyA_perM 151 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055204	M	M	NA	Agree	0.00	3.95	0.00	13.40	0.88	190.71	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.921706	0.029372	0.039262	0.00966	90.49	5.20	3.98	135	LP2 (2026-09-30)	PASS	NonPolyA_perM 135 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055205	F	F	NA	Agree	1.54	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.89659	0.04257	0.049779	0.011061	89.41	5.86	4.45	148	LP2 (2026-09-30)	PASS	NonPolyA_perM 148 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055206	M	M	NA	Agree	0.00	4.41	0.00	21.73	1.16	150.90	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.915343	0.032759	0.042857	0.009042	89.65	5.55	4.49	154	LP2 (2026-09-30)	PASS	NonPolyA_perM 154 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055207	M	M	NA	Agree	0.00	3.51	0.00	10.72	0.53	164.63	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.918003	0.031318	0.039487	0.011193	89.58	5.61	4.51	167	LP2 (2026-09-30)	PASS	NonPolyA_perM 167 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055208	F	F	NA	Agree	2.57	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.927737	0.024465	0.041346	0.006452	92.45	3.80	3.56	65	LP2 (2026-09-30)	PASS	NonPolyA_perM 65 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055209	M	M	NA	Agree	0.00	4.27	0.00	12.82	0.75	178.50	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.919544	0.029445	0.040701	0.01031	90.11	5.33	4.25	126	LP2 (2026-09-30)	PASS	NonPolyA_perM 126 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM7055210	F	F	NA	Agree	0.46	0.00	0.00	0.00	0.00	0.00	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.911378	0.032341	0.044451	0.011829	89.56	5.68	4.47	168	LP2 (2026-09-30)	PASS	NonPolyA_perM 168 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does