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Table 2 Differentially expressed ncRNAs

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

Gene_name

Gene_type

NPC_binding

Log2FC

Padj

DLX6-AS1

antisense

0

5.34E + 00

3.85E-86

EMX2OS

antisense

0

1.10E + 00

3.79E-02

LINC00340

lincRNA

1

−7.78E-01

1.54E-04

TERC

lincRNA

0

−1.07E + 00

1.18E-03

CRNDE

lincRNA

1

−9.63E-01

1.39E-02

MEG3

lincRNA

1

−1.24E + 00

1.39E-02

RMST

processed_transcript

0

−1.23E + 00

6.41E-07

MIAT

processed_transcript

1

−1.28E + 00

6.10E-06

NEFL

processed_transcript

0

−1.18E + 00

2.08E-04

TMEM191A

processed_transcript

0

−7.74E-01

1.33E-02

SPPL2B

processed_transcript

1

−6.41E-01

2.32E-02

SCARNA22

sense_intronic

0

−1.31E + 00

1.56E-03

SNHG3

sense_intronic

1

−7.94E-01

1.41E-02

SOX2-OT

sense_overlapping

1

9.29E-01

9.81E-04

SNORA31

snoRNA

0

−1.03E + 00

2.41E-02

SNORA7B

snoRNA

1

−1.03E + 00

3.30E-02

SCARNA13

snoRNA

0

−7.08E-01

3.77E-02

SNORA73B

snoRNA

1

−7.89E-01

4.61E-02

RNU2-59P

snRNA

0

−9.94E-01

1.76E-02

RNU6-15P

snRNA

0

−1.07E + 00

4.99E-02

  1. FC is fold change: CHD8 +/−/CHD8 ++. Padj is adjusted p value. CHD8 binding based on ChIP-seq in NPCs by Sugathan et al. [42]