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
GSM5717700	not_specified	M	NA	Conflict	0.24	10.17	0.00	66.80	21.80	70.06	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.8745	0.088631	0.035298	0.001571	94.91	2.58	2.22	141	LP2 (2026-09-30)	PASS	NonPolyA_perM 141 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717701	not_specified	M	NA	Conflict	0.21	12.64	0.00	59.77	23.53	66.12	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.86737	0.09658	0.034136	0.001914	94.32	3.17	2.18	167	LP2 (2026-09-30)	PASS	NonPolyA_perM 167 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717702	not_specified	M	NA	Conflict	0.11	9.90	0.00	67.14	17.15	85.56	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.907112	0.059287	0.030989	0.002612	95.87	1.83	2.12	112	LP2 (2026-09-30)	PASS	NonPolyA_perM 112 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717703	not_specified	M	NA	Conflict	0.17	11.68	0.00	55.71	19.92	58.16	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.880942	0.083861	0.032783	0.002413	93.56	3.85	2.24	153	LP2 (2026-09-30)	PASS	NonPolyA_perM 153 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717704	not_specified	M	NA	Conflict	0.26	11.69	0.00	67.02	21.26	68.18	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.878993	0.083025	0.035015	0.002967	94.18	3.16	2.23	158	LP2 (2026-09-30)	PASS	NonPolyA_perM 158 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717705	not_specified	M	NA	Conflict	0.29	13.04	0.00	57.70	22.16	69.60	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.86939	0.094496	0.034106	0.002008	93.38	4.08	2.11	209	LP2 (2026-09-30)	PASS	NonPolyA_perM 209 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717706	not_specified	M	NA	Conflict	0.30	11.61	0.00	54.50	20.26	67.33	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883304	0.080506	0.032631	0.003559	94.13	3.28	2.26	157	LP2 (2026-09-30)	PASS	NonPolyA_perM 157 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717707	not_specified	M	NA	Conflict	0.11	9.19	0.00	54.42	18.78	60.34	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.890072	0.074045	0.032832	0.003051	93.84	3.64	2.14	120	LP2 (2026-09-30)	PASS	NonPolyA_perM 120 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717708	not_specified	M	NA	Conflict	0.09	8.12	0.00	42.07	13.11	49.97	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.905319	0.06207	0.028936	0.003674	92.41	5.06	2.10	118	LP2 (2026-09-30)	PASS	NonPolyA_perM 118 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717709	not_specified	M	NA	Conflict	0.21	12.45	0.00	71.26	18.85	70.41	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.880195	0.081056	0.034832	0.003918	94.55	2.92	2.12	134	LP2 (2026-09-30)	PASS	NonPolyA_perM 134 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717710	not_specified	M	NA	Conflict	0.15	9.43	0.00	64.65	17.19	76.76	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883254	0.078999	0.034442	0.003304	94.91	2.59	2.15	105	LP2 (2026-09-30)	PASS	NonPolyA_perM 105 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does
GSM5717711	not_specified	M	NA	Conflict	0.13	9.61	0.00	60.94	17.00	75.12	SECOND_READ_TRANSCRIPTION_STRAND	POLYA	0.883058	0.079433	0.034327	0.003182	94.85	2.59	2.20	104	LP2 (2026-09-30)	PASS	NonPolyA_perM 104 <= 350: non-polyadenylated small RNAs removed, as oligo-dT (polyA) selection does