2b:null 2c:["$","title",null,{"children":"CPFP2019 | Jonas Almeida | Observable"}] 31:T9e7,md`# CPFP2019 Jonas S Almeida, Sep 09, 2019 ## Abstract Living document with support material for CPFP fall seminar, kept at bit.ly/cpfp2019. 2019 CPFP FALL TRAINING (pdf):
DATA SCIENCE AND THE CANCER PREVENTION RESEARCHER ### 9:05am – 9:35 am - Data Science Overview Presentation Objective: Fellows will be able to construct an understanding of data science from conception to application.

#### DIscussion points * Driver of Biomathematics --> Bioinformatics --> Data Science * The hype cycle, from Science to Technology

* **Data Scientists ship!** * Reproducibility - [FAIR](https://www.nature.com/articles/sdata201618). * [Data Commons](https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5988431) and API ecosystems. Being very specific - http://bit.ly/tcgascope. * Cancer Genome Commons ([GDC](https://gdc.cancer.gov/)) <-- have a look, we'll use this later in the morning. * [Literate programing](https://en.wikipedia.org/wiki/Literate_programming), a matter of literacy. * Data Driven Documents ([d3](https://d3js.org/)) everywhere, UI models for graphing such as [plotly](https://plot.ly), [vega](https://vega.github.io) etc. * AI - (the unreasonable effectiveness of data)[https://static.googleusercontent.com/media/research.google.com/en//pubs/archive/35179.pdf]. * [The knowledge reengineering bottleneck](http://www.semantic-web-journal.net/sites/default/files/swj32.pdf) - variable inclusion outstepping variable selection. * [Data Science at NIH](https://datascience.nih.gov/sites/default/files/NIH_Strategic_Plan_for_Data_Science_Final_508.pdf). * Cloud execution models is where the change gets serious: [datascience.nih.gov/strides](https://datascience.nih.gov/strides) (mention new capital investment). ### Preparing for hands on * [WebGen](https://web4bio.github.io/webgen/). * [CaViz](https://observablehq.com/@episphere/caviz). * [All-of-Us](https://www.researchallofus.org) in [real-time](https://observablehq.com/@episphere/aou). * Weekly hackathon at DCEG: [Cloud4Bio](https://cloud4bio.github.io/). `32:[] 2f:{"id":"e66514ca0482bb1c","slug":"cpfp2019","title":"CPFP2019","thumbnail":"c206c7eeb5d129009ead520c91913c572560bed712b13752225a9bcfc4edb77a","access_level":"public","create_time":"$D2019-09-09T17:49:43.976Z","update_time":"$D2019-09-09T19:29:42.614Z","view_time":null,"first_public_time":"$D2019-09-09T17:49:59.730Z","fork":false,"stars":0,"starred":false,"owner":{"type":"team","id":"0f2e596d5bd6ef6e","login":"episphere","name":"Jonas Almeida","avatar_url":"https://avatars-next.observableusercontent.com/3a0ff5abff6da0cdbd100da305ba323e12d43c8fcb7604275e6c72591db9dc69","tier":"starter_2024"},"version":91,"publish_version":91,"role":null,"authored":false,"authors":[{"type":"individual","id":"4355fe13cb71b11d","login":"episphere","name":"Jonas Almeida","avatar_url":"https://avatars-next.observableusercontent.com/3a0ff5abff6da0cdbd100da305ba323e12d43c8fcb7604275e6c72591db9dc69","tier":null}],"members":[{"type":"individual","id":"4355fe13cb71b11d","login":"episphere","name":"Jonas Almeida","avatar_url":"https://avatars-next.observableusercontent.com/3a0ff5abff6da0cdbd100da305ba323e12d43c8fcb7604275e6c72591db9dc69","tier":null,"role":"editor"}],"comments":[],"custom_thumbnail":false,"trashed":false,"lapsed":null,"subscribed":null,"forks":0,"collection":null,"type":"notebook","body":{"title":"CPFP2019","cells":[{"id":0,"value":"$31","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"},{"id":73,"value":"md`\n### 11:05-11:45:\nPresenter 3: Jonas Almeida, PhD, Chief Data Scientist, DCEG \n\nWhile keepng in mind that\n\n* Data Scientists Ship !\n* COmputation decoupled from data, for example [AI playground](https://playground.tensorflow.org), and also [convnetjs](https://cs.stanford.edu/people/karpathy/convnetjs/).\n\nLet's pick an API and give it a try!\n\n* SEER: https://api.seer.cancer.gov\n* Genomics - GDC: https://gdc.cancer.gov/developers/gdc-application-programming-interface-api\n* Imaging - presented yesterday, we'll do it together - http://demo.kitware.com/histomicstk\n\n\n\n`","pinned":false,"hidden":false,"mode":"ojs","author":"$undefined","summary":"$undefined","output":"$undefined","database":"$undefined"}],"files":"$W32","stdlib":"1","titling":"auto"}} 30:"$2f:body"