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
GSM4555720	M	M	NA	Agree	0.03	1.40	0.00	6.65	4.77	57.40	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.920267	0.029112	0.046449	0.004172	83.92	2.27	13.62	30	LP2 (2026-09-30)	PASS	NonPolyA_perM 30 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555721	M	M	NA	Agree	0.02	3.28	0.00	19.64	10.06	55.46	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.916784	0.035531	0.044594	0.003091	86.77	1.95	11.12	39	LP2 (2026-09-30)	PASS	NonPolyA_perM 39 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555722	M	M	NA	Agree	0.06	3.26	0.00	20.89	10.19	65.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.919816	0.034186	0.04305	0.002948	84.70	1.87	13.27	36	LP2 (2026-09-30)	PASS	NonPolyA_perM 36 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555723	M	M	NA	Agree	0.01	3.12	0.00	14.96	9.36	65.11	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.919266	0.032608	0.045952	0.002174	84.51	1.90	13.43	39	LP2 (2026-09-30)	PASS	NonPolyA_perM 39 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555724	M	M	NA	Agree	0.01	1.79	0.00	15.80	7.92	62.94	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.919113	0.032123	0.045058	0.003706	84.91	2.02	12.92	34	LP2 (2026-09-30)	PASS	NonPolyA_perM 34 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555725	M	M	NA	Agree	0.05	3.52	0.00	21.08	10.63	67.44	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.919579	0.034076	0.044354	0.001992	85.27	1.77	12.80	42	LP2 (2026-09-30)	PASS	NonPolyA_perM 42 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555726	M	M	NA	Agree	0.01	3.97	0.00	24.08	10.14	68.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.914575	0.038444	0.044214	0.002767	86.11	1.85	11.89	34	LP2 (2026-09-30)	PASS	NonPolyA_perM 34 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555727	M	M	NA	Agree	0.01	3.61	0.00	26.40	11.52	76.73	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.91684	0.035669	0.045351	0.00214	86.57	1.79	11.49	64	LP2 (2026-09-30)	PASS	NonPolyA_perM 64 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555728	M	M	NA	Agree	0.07	5.26	0.00	31.50	9.85	74.41	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.913416	0.040005	0.044833	0.001746	87.53	1.73	10.58	46	LP2 (2026-09-30)	PASS	NonPolyA_perM 46 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555729	M	M	NA	Agree	0.08	5.00	0.00	28.65	10.53	72.14	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.912087	0.041133	0.044908	0.001872	88.14	1.73	9.97	58	LP2 (2026-09-30)	PASS	NonPolyA_perM 58 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555730	M	M	NA	Agree	0.09	7.12	0.00	41.66	14.18	74.62	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.888638	0.05934	0.051132	0.000891	69.01	1.37	29.46	56	LP2 (2026-09-30)	PASS	NonPolyA_perM 56 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555731	M	M	NA	Agree	0.09	3.95	0.00	35.42	12.40	66.04	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.897084	0.052303	0.049778	0.000835	81.08	1.64	17.14	45	LP2 (2026-09-30)	PASS	NonPolyA_perM 45 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555732	M	M	NA	Agree	0.07	6.80	0.00	41.05	11.80	68.72	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901829	0.047906	0.049266	0.000999	85.23	1.71	12.90	41	LP2 (2026-09-30)	PASS	NonPolyA_perM 41 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555733	M	M	NA	Agree	0.07	6.34	0.00	38.42	12.92	67.30	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.895594	0.053717	0.049758	0.000931	83.68	1.69	14.47	61	LP2 (2026-09-30)	PASS	NonPolyA_perM 61 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555734	M	M	NA	Agree	0.12	6.33	0.00	40.87	14.47	75.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894381	0.053952	0.050527	0.00114	85.70	1.82	12.31	53	LP2 (2026-09-30)	PASS	NonPolyA_perM 53 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555735	M	M	NA	Agree	0.03	5.91	0.00	39.11	13.88	69.93	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901545	0.047938	0.049136	0.001381	85.45	1.71	12.68	55	LP2 (2026-09-30)	PASS	NonPolyA_perM 55 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555736	M	M	NA	Agree	0.05	5.92	0.00	35.74	14.01	65.39	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.901294	0.049433	0.048257	0.001016	82.87	1.68	15.27	63	LP2 (2026-09-30)	PASS	NonPolyA_perM 63 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555737	M	M	NA	Agree	0.05	7.31	0.00	35.87	13.80	67.48	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.894021	0.056778	0.048577	0.000623	83.69	1.61	14.53	59	LP2 (2026-09-30)	PASS	NonPolyA_perM 59 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555738	M	M	NA	Agree	0.10	6.16	0.00	40.24	13.21	71.38	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.900702	0.051117	0.047156	0.001025	85.61	1.65	12.58	57	LP2 (2026-09-30)	PASS	NonPolyA_perM 57 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM4555739	M	M	NA	Agree	0.10	8.05	0.00	37.27	13.82	78.19	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.900704	0.049576	0.048458	0.001262	85.94	1.71	12.19	66	LP2 (2026-09-30)	PASS	NonPolyA_perM 66 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does