Table 1. Summary of confirmed de novo SNVs from exome sequencing in 17 OCD parent trios.
Individual | Chr | Position (hg19) | Gene |
Expression |
Reference allele | Variant allele | Variant effect | Amino acid substitution | RVIS (%ile) | ExAC frequency | Detection pipeline | |
---|---|---|---|---|---|---|---|---|---|---|---|---|
Brain | Synaptic | |||||||||||
OCD016301 | 15 | 75891017 | SNUPN | Yes | No | A | C | Missense | D255E | 0.6 (82.66%) | NA | Both |
OCD018901 | 3 | 10380029 | ATP2B2 | Yes | Yes | A | G | Missense | I1084T | −1.94 (1.89%) | NA | Both |
OCD018901 | 3 | 180703745 | DNAJC19 | Yes | Yes | T | C | Silent | R83R | −0.08 (47.79%) | NA | SAMtools |
OCD032201 | 2 | 219647088 | CYP27A1 | Yes | No | A | T | Silent | P61P | −0.31 (32.23%) | NA | SAMtools |
OCD032201 | 8 | 87423972 | WWP1 | Yes | Yes | A | G | Missense | I310M | −0.69 (15.12%) | 8.2 × 10−6 | Both |
OCD032201 | 10 | 50678378 | ERCC6 | Yes | No | T | A | Nonsense | K1210X | 1.49 (95.32%) | NA | Both |
OCD032201 | 11 | 62400166 | GANAB | Yes | No | C | T | Silent | L311L | −0.66 (16.02%) | NA | SAMtools |
OCD129101 | 2 | 219894325 | CCDC108 | Yes | No | C | T | Missense | E484K | −1.85 (2.04%) | 8.2 × 10−6 | Both |
OCD129101 | 4 | 102993556 | BANK1 | Yes | No | A | T | Missense | K633M | 0.45 (78%) | NA | Both |
OCD129101 | 5 | 16783451 | MYO10 | Yes | No | C | T | Missense | E199K | −1.61 (2.97%) | NA | Both |
OCD139801 | 1 | 89655829 | GBP4 | Yes | No | C | A | Silent | T363T | 1.76 (96.73%) | NA | SAMtools |
OCD139801 | 1 | 177226291 | FAM5B | Yes | No | C | G | Missense | NA | −1.15 (6.27%) | NA | Both |
OCD139801 | 1 | 207755290 | CR1 | No | No | T | A | Missense | S1748R | NA | NA | Both |
OCD139801 | 2 | 223423326 | SGPP2 | Yes | No | C | T | Silent | P303P | −0.6 (17.91%) | 1.7 × 10−5 | SAMtools |
OCD144601 | 2 | 220402768 | ACCN4 | Yes | No | G | A | Silent | X667X | 0.4 (76.45%) | 1.1 × 10−5 | SAMtools |
OCD144601 | X | 8138284 | VCX2 | Yes | No | G | C | Missense | A70G | NA | 0.793 | Both |
OCD175901 | 16 | 11016048 | CIITA | Yes | No | C | T | Silent | D1058D | −0.89 (10.19%) | 4.1 × 10−5 | SAMtools |
OCD175901 | 16 | 71807129 | AP1G1 | Yes | Yes | T | C | Missense | K155E | −0.76 (13.45%) | NA | Both |
OCD181401 | 10 | 28971325 | BAMBI | Yes | No | G | A | Missense | V260I | −0.12 (45.13%) | 8.24 × 10−6 | Both |
OCD176501 | 16 | 15790756 | NDE1 | Yes | No | A | C | Missense | A986C | −0.82 (11.77%) | 0.0003 | GATK |
OCD018901 | 18 | 48584826 | SMAD4 | Yes | No | T | C | Missense | W302R | −0.32 (31.69%) | NA | GATK |
OCD020001 | 11 | 1270892 | MUC5B | Yes | No | C | A | Missense | A4261E | 16.52 (99.98%) | 0.001 | GATK |
OCD003301 | X | 11206984 | ARHGAP6 | Yes | No | G | A | Missense | S134F | −0.56 (19.73%) | 0.008 | GATK |
OCD043301 | 14 | 21870199 | CHD8 | Yes | No | C | T | Missense | E1327K | −2.34 (1.18%) | NA | GATK |
OCD048501 | 4 | 146033407 | ABCE1 | Yes | No | C | G | Missense | P243A | −0.25 (35.42%) | 0.003 | GATK |
OCD048501 | 8 | 11188956 | SLC35G5 | Yes | Yes | G | A | Missense | S114N | 1.36 (94.44%) | 8.2 × 10−6 | GATK |
OCD048501 | 11 | 18266989 | SAA2 | Yes | No | T | C | Missense | K102E | 0.73 (85.98%) | 9.9 × 10−5 | GATK |
Abbreviations: Chr, chromosome; ExAC Frequency, overall variant frequencies in version 0.3 of the Exome Aggregation Consortium data set; NA, not present in data set; OCD, obsessive-compulsive disorder; RVIS, Residual Variation Intolerance Score, release 9 (http://genetic-intolerance.org, accessed December 1, 2015); SNV, single-nucleotide variant.