{"action":"created","issue":{"url":"https://api.github.com/repos/STAT540-UBC/Discussion/issues/3","labels_url":"https://api.github.com/repos/STAT540-UBC/Discussion/issues/3/labels{/name}","comments_url":"https://api.github.com/repos/STAT540-UBC/Discussion/issues/3/comments","events_url":"https://api.github.com/repos/STAT540-UBC/Discussion/issues/3/events","html_url":"https://github.com/STAT540-UBC/Discussion/issues/3","id":54527095,"number":3,"title":"Group project - Allergic asthma inhalation challenge study","user":{"login":"yyolanda","id":8632806,"avatar_url":"https://avatars.githubusercontent.com/u/8632806?v=3","gravatar_id":"","url":"https://api.github.com/users/yyolanda","html_url":"https://github.com/yyolanda","followers_url":"https://api.github.com/users/yyolanda/followers","following_url":"https://api.github.com/users/yyolanda/following{/other_user}","gists_url":"https://api.github.com/users/yyolanda/gists{/gist_id}","starred_url":"https://api.github.com/users/yyolanda/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/yyolanda/subscriptions","organizations_url":"https://api.github.com/users/yyolanda/orgs","repos_url":"https://api.github.com/users/yyolanda/repos","events_url":"https://api.github.com/users/yyolanda/events{/privacy}","received_events_url":"https://api.github.com/users/yyolanda/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":13,"created_at":"2015-01-16T00:55:58Z","updated_at":"2015-01-29T00:06:59Z","closed_at":null,"body":"Hi everyone,\r\n\r\nI have got a microarray dataset which contains 28 samples and around 22000 genes. In this dataset, 14 participants with mild allergic asthma underwent an allergen inhalation challenge. Their peripheral blood was collected prior to and 2 hours post allergen challenge. Two phenotypes are involved in the study: an individual with only the early allergic response is classified as an early responder (ER) while an individual with both the early allergic response and the late allergic response is classified as a dual responder (DR). Expression profiling was performed using Affymetrix Human Gene 1.0 ST arrays. Demographics including personal information, leukocytes counts etc. of the participants are also available. Since we have already got publications on this dataset, we can get very detailed information regarding this dataset. Differential expression analyses like (pre samples vs. post samples, ER samples vs. DR samples at different stages of challenge etc.) has already been done. We can also look at the dataset with other approaches to further characterize the differences between different phenotypes of asthmatics and different stages of allergen inhalation challenge. In addition, different methods of normalization can be worth to have a try. (Or we can discuss about what we can do later.) \r\n\r\nSo far, we have 3 people in our group all coming from bioinformatics: Naman, Hamza and me (Yolanda). We would really like to get some help from statistic people as we don't have strong statistical backgrounds but we are also glad to get anyone who is interested in this dataset! I have already got some R scripts and a shiny app based on this dataset from my STAT545 homework. You are welcome to play with my AsthMA app [here](https://yyolanda0507.shinyapps.io/AsthMA-app/). Further information about the dataset can be found in this paper: [\"Th17/Treg ratio derived using DNA methylation analysis is associated with the late phase asthmatic response\" (PMCID: PMC4078401)](http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4078401/).\r\n\r\nThis is just a suggestion and I'm also happy with other datasets if available. \r\nFeel free to leave a comment below or contact me at y.yolanda0507@gmail.com  =)\r\n\r\nYolanda"},"comment":{"url":"https://api.github.com/repos/STAT540-UBC/Discussion/issues/comments/71943789","html_url":"https://github.com/STAT540-UBC/Discussion/issues/3#issuecomment-71943789","issue_url":"https://api.github.com/repos/STAT540-UBC/Discussion/issues/3","id":71943789,"user":{"login":"gcohenfr","id":2896441,"avatar_url":"https://avatars.githubusercontent.com/u/2896441?v=3","gravatar_id":"","url":"https://api.github.com/users/gcohenfr","html_url":"https://github.com/gcohenfr","followers_url":"https://api.github.com/users/gcohenfr/followers","following_url":"https://api.github.com/users/gcohenfr/following{/other_user}","gists_url":"https://api.github.com/users/gcohenfr/gists{/gist_id}","starred_url":"https://api.github.com/users/gcohenfr/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/gcohenfr/subscriptions","organizations_url":"https://api.github.com/users/gcohenfr/orgs","repos_url":"https://api.github.com/users/gcohenfr/repos","events_url":"https://api.github.com/users/gcohenfr/events{/privacy}","received_events_url":"https://api.github.com/users/gcohenfr/received_events","type":"User","site_admin":false},"created_at":"2015-01-29T00:06:59Z","updated_at":"2015-01-29T00:06:59Z","body":"6 members is possible. However, if there is another group with short numbers, I may need to move one of you."}}