Key resources table.

REAGENT or RESOURCE	SOURCE	IDENTIFIER
Deposited data
MSSNG	This paper	https://research.mss.ng/
Simons Simplex Collection	SFARI	https://www.sfari.org/resource/sfari-base/
SPARK	SFARI	https://www.sfari.org/resource/sfari-base/
1000 Genomes Project	1000 Genomes Project Consortium	https://www.internationalgenome.org/
Human Reference Genome Build 38 (GRCh38)	Genome Reference Consortium	https://www.ncbi.nlm.nih.gov/grc/human
Genome aggregation database (gnomAD)	Broad Institute	https://gnomad.broadinstitute.org/
dbNSFP	Liu et al.125	https://sites.google.com/site/jpopgen/dbNSFP
ASC variant-level data	Autism Sequencing Consortium	https://asc.broadinstitute.org
Ensembl Regulatory Build	Ensembl	http://useast.ensembl.org/info/genome/funcgen/regulatory_build.html
GeneHancer	Fishilevich et al.108	https://genome.ucsc.edu/
ReMap2020	Chèneby et al.109	http://remap.univ-amu.fr
LNCipedia	Volders et al.110	https://lncipedia.org
DASHR	Kuksa et al.111	https://dashr2.lisanwanglab.org
dbRIP	Wang et al.112	https://dbrip.brocku.ca
Software and algorithms
Sentieon	Kendig et al.80	https://www.sentieon.com/products/
DeNovoGear	Ramu et al.85	https://github.com/ultimatesource/denovogear
ADMIXTURE	Alexander et al.86	https://dalexander.github.io/admixture/publications.html
Genomic ancestry inference with deep learning	Google	https://cloud.google.com/blog/products/gcp/genomic-ancestry-inference-with-deep-learning
BWA	Li and Durbin81	http://bio-bwa.sourceforge.net/
SAMtools	Li et al.118	http://www.htslib.org/
HaploGrep	Weissensteiner et al.119	https://haplogrep.i-med.ac.at/
MitoMaster	Lott et al.120	https://www.mitomap.org/foswiki/bin/view/MITOMASTER/WebHome
ERDS	Zhu et al.88	https://github.com/igm-team/ERDS
CNVnator	Abyzov et al.89	https://github.com/abyzovlab/CNVnator
DELLY	Rausch et al.91	https://github.com/dellytools/delly
Manta	Chen et al.94	https://github.com/Illumina/manta
ANNOVAR	Wang et al.84	https://annovar.openbioinformatics.org/en/latest/
Variant Effect Predictor (VEP)	McLaren et al.106	https://useast.ensembl.org/info/docs/tools/vep/index.html
TADA	He et al.24	http://www.compgen.pitt.edu/TADA/TADA_guide.html
TADA+	Satterstrom et al.8	Personal communication
PLINK	Purcell et al.105	https://zzz.bwh.harvard.edu/plink/
GeneMANIA	Warde-Farley et al.126	https://genemania.org/
Custom scripts	This paper	10.5281/zenodo.7086706