If you would like to request new variables for an analysis on UK Biobank you are planning, please fill in the information below.
Please note the following:
1. You will need to go to the main UK Biobank phenotype webpage (http://biobank.ctsu.ox.ac.uk/crystal/catalogs.cgi) to find the relevant information.
2. Place a separate entry for each scientific question.
3. Please try to make each entry clean and easy for me to use; check “show preview” before saving to ensure that your entries look like the first two entries.
4. Please copy the formatting below to add more entries.
1
Your name: Teresa de Candia
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Home location at assessment - east co-ordinate http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=20033 Field ID 20033
2. Home location at assessment - north co-ordinate http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=20034 Field ID 20034
3. Number in household http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=709 Field ID 709
4. How are people in household related to participant http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=6141 Field ID 6141
5. Father's age http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=2946 Field ID 2946
6. Mother's age http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=1845 Field ID 1845
7. Number of vehicles in household http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=728 Field ID 728
8. Length of time at current address http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=699 Field 699
The research question you are planning to answer with the variables above:
These variables will enable us to infer who the spouses are for participants in the UK Biobank, as has been done in a previous study (http://link.springer.com/article/10.1186/s13059-015-0833-8). We are doing a project on how assortative mating affects estimates from GCTA, and we need to know how correlated each phenotype we have access to is between spouses.
2
Your name: Teresa de Candia
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Bone mineral density http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=78 Field 78
The research question you are planning to answer with the variables above:
We need to find a phenotype for which the spousal correlation is expected to be low; we think that bone mineral density might show a low spousal correlation.
3
Your name: David Brazel
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Aide-memoire completed http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=111 Field 111
2. Time taken for biometric station http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=4 Field 4
3. Time taken for blood phlebotomy station http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5 Field 5
4. Time taken for conclusion station http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=6 Field 6
5. Time taken for exercise station http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=6022 Field 6022
6. Time taken for ocular station http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5198 Field 5198
7. Time taken for verbal interview stage http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=3 Field 3
8. Willing to attempt cognitive tests http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=62 Field 62
The research question you are planning to answer with the variables above:
These variables will be used as covariates to the primary phenotypes that we have already requested in order to determine whether they are confounded with variance in procedural metrics.
4
Your name: Maia Frieser & Mengzhen Liu
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Brain MRI http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100 Category 100 - BULK
2. Death Registry http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100093 Category 100093
3. Job Coding http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=22601 Field 22601
4. Diagnoses- Main ICD10 http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=41202 Field 41202
5. Episodes containing “Diagnoses - main ICD10” data http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=41142 Field 41142
The research question you are planning to answer with the variables above:
After conducting a GWAS for left-handedness, we will use these variables to determine if the genetic correlates of left-handedness also affect other highly-correlated phenotypes. These phenotypes include schizophrenia diagnosis, so we are requesting ICD-10 diagnostic coding (Field 41202 and Field 41142), brain symmetry, function, and possible injury to parts of the brain (Category 100- Brain MRI), and creativity, which we will examine using Job Coding data (Field 22601) looking for people with jobs in artistic and/or creative fields. Similarly, we are requesting the death registry data (Category 100093), as previous research shows that left-handed people have a shorter life-span than right handed people. We will also attempt to replicate previous hits and associations for left-handedness.
5
Your name: Brooke Huibregtse
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1) Answered sexual history questions http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=2129 Field ID 2129
2) Age first had sexual intercourse http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=2139 Field ID 2139 -SENSITIVE
3) Lifetime number of sexual partners http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=2149 Field ID 2149 -SENSITIVE
4) Ever had same sex intercourse http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=2159 Field ID 2159 -SENSITIVE
5) Lifetime number of same sex sexual partners http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=3669 Field ID 3669 -SENSITIVE
6) Non-cancer illness code, self-reported http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=20002 Field ID 20002 (ALREADY HAVE)
7) Risk Taking http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=2040 Field ID 2040 (ALREADY HAVE)
8) Alcohol Intake frequency http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=1558 Field ID 1558 (ALREADY HAVE)
The research question you are planning to answer with the variables above: Some measures of sexual behavior, including age of sexual initiation and lifetime number of partners, are risk factors for acquiring sexually transmitted infections, human immunodeficiency virus (HIV), and externalizing psychopathology such as drug use. Same sex partnerships correspond to differential risk for infection, due to varying rates of transmission across types of sex acts as well as population differences in prevalence of infection. Twin and family studies have demonstrated moderate heritabilites for a range of sexual behaviors, few studies have tested the extent to which these trait heritabilities are polygenic or tagged by common variants. Genome wide analysis of these behaviors would inform theories regarding differing reproductive strategies, normative sexual behavior, and sexual behaviors that confer serious health risks. Field ID 2149 (sensitive) is the major dependent variable of interest and is absolutely required. Field ID 3669 (sensitive) is required to test whether contextual factors (i.e. partner type, type of sex act) moderates risk. Field ID 2139 (sensitive) is highly correlated with number of partners, and is required to control for length of time participants have been sexually active. Predictors (risk taking and substance use) and outcomes (infections) are also requested for secondary analyses.
6
Your name: Naomi Friedman
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Cognitive function http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100026 Field ID 100026 (ALREADY HAVE)
2. Brain MRI http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100 Field ID 100 (INCLUDES BULK)
3. Cognitive function follow-up http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=116 Field 116
The research question you are planning to answer with the variables above:
We are interested in the genetic correlations between neural measures and particular cognitive abilities. We will use the brain MRI measures (both structural and functional) to create neural phenotypes and the cognitive data (touch-screen and follow-up) to create cognitive factors.
7
Your name: Naomi Friedman
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Cognitive function http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100026 Field ID 100026 (ALREADY HAVE)
2. Brain MRI http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100 Field ID 100 (INCLUDES BULK)
3. Cognitive function follow-up http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=116 Field 116
4. Diagnoses- Main ICD10 http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=41202 Field 41202
5. Episodes containing “Diagnoses - main ICD10” data http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=41142 Field 41142
The research question you are planning to answer with the variables above:
We are interested in the genetic correlations of different neural measures and cognitive abilities with psychopathology. We will use the brain MRI measures (both structural and functional) to create neural phenotypes and the cognitive data (touch-screen and follow-up) to create cognitive factors, then examine their genetic correlations with data from this sample on psychiatric phenotypes, as well as with PGC data.
8
Your name: Naomi Friedman
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Cognitive function http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100026 Field ID 100026 (ALREADY HAVE)
2. Brain MRI http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100 Field ID 100 (INCLUDES BULK)
3. Cognitive function follow-up http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=116 Field 116
4. Sleep http://biobank.ctsu.ox.ac.uk/crystal/label.cgi?id=100057 Field ID 100057
5. Diagnoses- Main ICD10 http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=41202 Field 41202
6. Episodes containing “Diagnoses - main ICD10” data http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=41142 Field 41142
The research question you are planning to answer with the variables above:
We are interested in genetic correlations of individual differences in sleep (including insomnia, duration, and chronotype) with cognitive abilities, neural functioning, and psychopathology. We will use the brain MRI measures (both structural and functional) to create neural phenotypes and the cognitive data (touch-screen and follow-up) to create cognitive factors, then examine the genetic correlations of the sleep measures with these data and with PGC data.
9
Your name: David Brazel
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Time to complete touchscreen questionnaire http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=630 Field 630
2. Reason for skipping visual acuity (left) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=20057 Field 20057
3. Reason for skipping visual acuity (right) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=20056 Field 20056
4. Glasses worn/required (left) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=6075 Field 6075
5. Glasses worn/required (right) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=6074 Field 6074
6. Visual acuity measured (left) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5187 Field 5187
7. Visual acuity measured (right) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5185 Field 5185
8. Distance of viewer to screen (left) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5211 Field 5211
9. Distance of viewer to screen (right) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5204 Field 5204
10. Direct or mirror view (left) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5212 Field 5212
11. Direct or mirror view (right) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5205 Field 5205
12. logMAR, final (left) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5208 Field 5208
13. logMAR, final (right) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5201 Field 5201
14. Both eyes present http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5182 Field 5182
15. Current eye infection http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=5183 Field 5183
16. Wears glasses or contact lenses http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=2207 Field 2207
17. Reason for glasses/contact lenses http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=6147 Field 6147
18. Program (tactus) version ID (compiler timestamp) http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=393 Field 393 - SENSITIVE
The research question you are planning to answer with the variables above:
We will test whether the time to complete the touchscreen questionnaire can be used as an indicator of reading ability. If so, we will perform a genetic association analysis. Visual acuity variables are included as possible confounders. Field 393, which is sensitive, is absolutely required for this purpose. Completion time of the touchscreen questionnaire is likely to be dependent on the version of the touchscreen software used by a participant. We will need to segment our analysis using this variable.
10
Your name: Emma Johnson
The variable name, link to the variable, and Field ID for EACH variable, listed below:
1. Home area population density http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=20118 Field 20118
2. Length of time at current address http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=699 Field 699
3. Own or rent accommodation lived in http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=680 Field 680
4. Type of accommodation lived in http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=670 Field 670
5. Current employment status http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=6142 Field 6142
6. Time employed in main current job http://biobank.ctsu.ox.ac.uk/crystal/field.cgi?id=757 Field 757
The research question you are planning to answer with the variables above: We are interested in doing a runs of homozygosity analysis in the UK Biobank data, assessing the relationship between these sociodemographic variables and autozygosity. Based on previous research and the ROH literature, we have reason to believe that various sociodemographic confounders can subtly bias the relationship between very distant inbreeding and psychiatric traits of interest, but many of our case-control datasets do not have these confounding variables measured, making it difficult to test the direction and strength of their influence. The variables listed above will allow us to test whether things like urban/rural location, education, employment, and other SES measures influence autozygosity and therefore could be influencing our ROH-psychiatric analyses.
