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Table 1 Top 15 DEGs in CHD8+/− vs idiopathic ASD cerebral organoids

From: CRISPR/Cas9-mediated heterozygous knockout of the autism gene CHD8 and characterization of its transcriptional networks in cerebral organoids derived from iPS cells

CHD8+/−

Log2FC

Padj

Log2FC_11

FDR

Log2FC_31

FDR

DLX6-AS1

5.34

3.85E-86

4.72

1.70E-75

4.61

7.03E-37

ARMCX1

−2.48

4.47E-34

NS

NS

NS

NS

DLX1

3.84

5.97E-32

2.14

1.38E-11

1.35

8.69E-03

FZD8

2.21

1.17E-26

1.19

2.35E-04

NS

NS

CPNE6

3.55

1.47E-24

NS

NS

NS

NS

PAX6

2.03

2.05E-22

NS

NS

1.29

2.23E-04

SLC1A3

1.61

2.05E-22

1.13

9.21E-06

NS

NS

EOMES

3.10

9.04E-22

2.96

1.85E-17

2.79

1.17E-06

MPPED1

2.92

3.31E-21

1.57

4.50E-05

1.41

7.29E-03

COL25A1

2.67

4.42E-21

NS

NS

NS

NS

SCGN

3.22

9.46E-20

2.15

1.25E-06

1.37

1.57E-02

STK17B

2.08

9.46E-20

NS

NS

NS

NS

LIX1

2.14

8.70E-19

NS

NS

0.83

2.53E-02

BCL11B

1.63

7.21E-18

0.95

4.85E-02

2.16

2.36E-12

SHISA2

2.14

2.29E-17

1.41

1.58E-06

NS

NS

  1. Top 15 DEGs in CHD8 +/− are shown in left columns with fold change (FC) and p value adjusted for genome-wide significance (padj). The right columns show the FC and false discovery rate (FDR) values for the same genes, derived from the Mariani et al. study [42]. Log2FC_11 is from day 11 cerebral organoids, while log2FC_31 is from day 31 organoids. Note that DLX6-AS1 was the top DEG in day 11 organoids and the 6th top DEG in day 31 organoids
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Molecular Autism

ISSN: 2040-2392