NBDC Research ID: hum0042.v1
SUMMARY
Aims: To identify susceptibility genes associated with degenerative bony changes of the temporomandibular joint (TMJ) and third molar agenesis.
Methods: Illumina HumanOmniExpress BeadChip was used for genotyping.
Participants/Materials: (1) 146 cases with TMJ and 374 controls (non-TMJ) in the Japanese and Korean populations
(2) 149 cases with at least one-third molar agenesis and 338 controls in the Japanese and Korean populations
| Dataset ID | Type of Data | Criteria | Release Date |
|---|---|---|---|
| hum0042.v1.TMJ.v1 |
GWAS in TMJ (105 Japanese cases, 41 Korean cases) and non-TMJ (193 Japanese controls, 181 Korean controls) |
Controlled-access (Type I) | 2016/03/02 |
| hum0042.v1.3MA.v1 |
mandibular third molar agenesis (40 Japanese cases, 40 Korean cases), maxillary third molar agenesis (62 Japanese cases, 63 Korean cases), at least one-third molar agenesis (78 Japanese cases, 71 Korean cases) |
Controlled-access (Type I) | 2016/03/02 |
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MOLECULAR DATA
| Participants/Materials: |
(1) TMJ TMJ: 146 cases (105 Japanese cases, 41 Korean cases) non-TMJ: 374 controls (193 Japanese controls, 181 Korean controls) (2) third molar agenesis (2-1) mandibular third molar agenesis with third molar agenesis (40 Japanese cases, 40 Korean cases) without third molar agenesis (224 Japanese controls, 183 Korean controls) (2-2) maxillary third molar agenesis with third molar agenesis (62 Japanese cases, 63 Korean cases) without third molar agenesis (202 Japanese controls, 160 Korean controls) (2-3) at least one-third molar agenesis with third molar agenesis (78 Japanese cases, 71 Korean cases) without third molar agenesis (186 Japanese controls, 152 Korean controls) |
| Targets | GWAS |
| Target Loci for Capture Methods | - |
| Platform | Illumina [HumanOmniExpress BeadChip] |
| Source | gDNAs extracted from saliva |
| Cell Lines | - |
| Library Construction (kit name) | Illumina HumanOmniExpress BeadChip kit |
| Genotyping Call Methods (software) | GenCall software (GenomeStudio) |
| Filtering Methods | Sample Call rate ≤ 0.98, SNP call rate ≤ 0.98, MAF ≤ 3%, HWE P < 1 x 10^-6 |
| Marker Number (after QC) |
(1) Japanese: 550,005 SNPs, Korean: 545,797 SNPs (2) Japanese: 547,727 SNPs, Korean: 545,945 SNPs |
| NBDC Dataset ID |
(1) hum0042.v1.TMJ.v1 (2) hum0042.v1.3MA.v1 |
| Total Data Volume |
(1) 198 MB (zip [xlsx]) (2) 589 MB (zip [xlsx]) |
| Comments (Policies) | NBDC policy |
This study was supported by “Genome Science”. “Genome Science” is a part of the “Support Programs for Three Fields in Life Sciences (cancer, genome and brain sciences)” established by the Ministry of Education, Culture, Sports, Science and Technology (MEXT) under the Grant-in-Aid for Scientific Research on Innovative Areas.
DATA PROVIDER
Principal Investigator: Tetsutarou Yamaguchi
Affiliation: Showa University School of Dentistry
Project / Group Name:
Funds / Grants (Research Project Number):
| Name | Title | Project Number |
|---|---|---|
|
Ministry of Education, Culture, Sports, Science and Technology (MEXT) KAKENHI Grant-in-Aid for Scientific Research on Innovative Areas |
Genome Science | 221S0002 |
PUBLICATIONS
| Title | DOI | Data ID | |
|---|---|---|---|
| 1 | Genome-wide association study of degenerative bony changes of the temporomandibular joint. | doi:10.1111/odi.12141 | hum0042.v1.TMJ.v1 |
| 2 | A genome-wide association study of third molar agenesis in Japanese and Korean populations. | doi:10.1038/jhg.2013.106 | hum0042.v1.3MA.v1 |
USERS (Controlled-Access Data)
| Principal Investigator | Affiliation | Country/Region | Research Title | Data in Use (Dataset ID) | Period of Data Use |
|---|---|---|---|---|---|
