Table 3.

DE genes linked to synaptic function.

Gene	CuffDiff2					DESeq2
	CTRL	ALS	log2(fc)	pvalue	padj	log2(fc)	pvalue	padj
CACNA1B	4,755	2,003	−1,247	5E-05	0,00071	−1,070	0,00013	0,00175
CPLX1	33,535	5,542	−2,597	5E-05	0,00071	−2,111	0,00000	0,00000
CPLX2	26,962	6,223	−2,115	5E-05	0,00071	−1,528	0,00064	0,00611
DNM1	32,800	7,355	−2,157	7E-04	0,00650	−1,614	0,00007	0,00116
NSF	26,828	8,603	−1,641	5E-05	0,00071	−1,379	0,00016	0,00208
RAB3A	33,164	6,083	−2,447	5E-05	0,00071	−1,849	0,00001	0,00027
RIMS1	11,579	3,910	−1,566	5E-05	0,00071	−1,408	0,00000	0,00000
SLC17A6	4,820	1,057	−2,190	5E-05	0,00071	−1,432	0,00261	0,01776
SLC18A3	17,019	1,829	−3,218	5E-05	0,00071	−2,409	0,00000	0,00000
SLC32A1	6,263	1,280	−2,290	5E-05	0,00071	−1,674	0,00015	0,00197
SNAP25	232,315	36,663	−2,664	5E-05	0,00071	−1,741	0,00031	0,00352
STX1B	20,025	4,881	−2,037	5E-05	0,00071	−1,665	0,00002	0,00032
STXBP1	42,523	16,587	−1,358	5E-05	0,00071	−1,225	0,00001	0,00025
UNC13A	3,875	1,350	−1,521	5E-05	0,00071	−1,318	0,00000	0,00002
UNC13C	5,286	2,190	−1,271	5E-05	0,00071	−1,187	0,00000	0,00012

List of DE genes linked to synaptic function. Per each gene we report: gene name, mean expression levels (in FPKM) in control and ALS groups (from CuffDiff2), log2(fc), P-value and corrected P-value calculated by CuffDiff2 and log2(fc), P-value and corrected P-value calculated by DESeq2.