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. 2018 Jul 25;99(2):389–403.e9. doi: 10.1016/j.neuron.2018.07.009
REAGENT or RESOURCE SOURCE IDENTIFIER
Antibodies

polyclonal rabbit anti-m6A (and m6Am) Synaptic Systems 202 003; RRID: AB_2279214
polyclonal rabbit anti-METTL3 Proteintech 15073-1-AP; RRID: AB_2142033
monoclonal mouse anti-FTO Merck Millipore MABE227; RRID: AB_11203491
polyclonal rabbit anti-ACTB Cell Signaling Technology 4967; RRID: AB_330288
monoclonal rabbit anti-GR Abcam ab109022; RRID: AB_10863164
polyclonal rabbit anti-BTUB Abcam ab6046; RRID: AB_2210370

Chemicals, Peptides, and Recombinant Proteins

corticosterone-HBC complex Sigma C174
Dexa-ratiopharm Ratiopharm Dexa-ratiopharm Injektionslösung 59988.00.00
cycloheximide Sigma C7698

Critical Commercial Assays

EpiQuik m6A RNA Methylation Quantification Kit (Colorimetric) Epigentek P-9005-96
TruSeq Stranded mRNA Library Prep Kit Illumina RS-122-2103
TruSeq Ribo Profile for Mammalian Illumina RPHMR12126
QuantiFast SYBR Green PCR Kit QIAGEN 204057
TaqMan Fast Advanced Master Mix Applied Biosystem 4444965

Deposited Data

superseries This paper GEO: GSE113801
m6A/m-Seq mouse cortex after acute stress This paper GEO: GSE113781
Ribosome profiling Seq mouse cortex after acute stress This paper GEO: GSE113789
m6A/m-Seq of mouse adult cortex of Mettl3 cKO or Fto cKO mice This paper GEO: GSE113793
mRNA-Seq of mouse Mettl3 cKO or Fto cKO mouse hippocampus after fear conditioning This paper GEO: GSE113796
m6A/m-Seq of human B-lymphocyte cell lines from healthy controls and major depressive disorder patients This paper GEO: GSE113798
FMR1 bound genes Darnell et al., 2011 Darnell et al., 2011 Supplemental Data

Experimental Models: Cell Lines

Human immortalized BLCLs from patients This paper N/A

Experimental Models: Organisms/Strains

10-12 w old adult male mice C57BL/6 Charles River 027
Mettl3 cKO mice Mettl3tm1a(KOMP)Wtsi V6.5 mouse ESCs targeted as described in mice generated by Geula et al., 2015 Mettl3tm1c(KOMP)Wtsi
Fto cKO mice Ftotm1a(EUCOMM)Wtsi EMMA EM: 05094 Ftotm1c(EUCOMM)Wtsi
Camk2a-Cre mice Minichiello et al., 1999 Tg(Camk2a-cre)93Kln MGI:2176754
Nex-CreERT2 mice Agarwal et al., 2012 Neurod6tm2.1(cre/ERT2)Kan MGI:5308766
Human blood Menke et al., 2012, Arloth et al., 2015 “MPIP” and “MARS” cohorts

Oligonucleotides

Gene expression primers for SYBR green qPCR: sequences see Gene expression Sigma-Aldrich N/A
Taqman gene expression assays: IDs see Candidate m6A/m-RIP-qPCR Taqman N/A
m6A-spike-in-oligo GCAGAACCUAGUAG
CGUGUGGm6ACACGAACAGGUAUCAAU
AUGCGGGUAUGGm6ACUAAAGCAACGUG
CGAGAUUACGCUGAGGm6ACUACAAUCU
'CAGUUACCA
Sigma-Aldrich N/A
primers for cloning ISH probes: Mettl3 exon 4 TCAGTCAGGAGATCCTAGAGCTATT and CTGAAGTGCAGCTTGCGACA; Fto exon 4 TGGCAGCTGAAATACCCTAAACT and ATAG
CTGTACACTGCCACGG)
Sigma-Aldrich N/A

Software and Algorithms

STAR Dobin et al., 2013 RRID: SCR_015899
cutadapt Martin, 2011 RRID: SCR_011841
exomePeak Meng et al., 2014 RRID: SCR_001076
BEDTools Quinlan and Hall, 2010 RRID: SCR_006646
DiffBind Ross-Innes et al., 2012 RRID: SCR_012918
DESeq2 Love et al., 2014 RRID: SCR_015687
ChIPseeker Yu et al., 2015 https://doi.org/10.18129/B9.bioc.ChIPseeker
BioMart Project Smedley et al., 2015 RRID: SCR_002987
Guitar Cui et al., 2016 https://doi.org/10.18129/B9.bioc.Guitar
PANTHER GO Mi et al., 2013 RRID: SCR_004869
DREME Bailey, 2011 RRID: SCR_001783
Integrative Genomics Viewer browser Robinson et al., 2011 RRID: SCR_011793
SPSS IBM SPSS Statistics RRID: SCR_002865
R R Development Core Team, 2011 RRID: SCR_001905
ggplot2 Wickham, 2009 RRID: SCR_014601