ASHG18 tweet summary day 3

Continuing from my ASHG18 day 1 post and day 2, here’s my list of tweets from day 3.

9:15 20BC

Jenna Carlson

Christopher R. Gignoux

www.pagestudy.org

Angela Andaleon

“It’s my pleasure to introduce to you Dr Angela Andaleon” “Not a doctor yet!” “Aspiring doctor Angela Andaleon”

^_^

Angela is presenting the continuation of her undergrad project.

6C 10 am

Zongli Xu

Lang Wu

Hmm, why use a 0.01 \(R^2\) cutoff? Isn’t that super low? Maybe I missed something.

Moving to Hawaii to start his career as a PI. He had nice pictures to motivate others to join his lab ;)

11 am 6A

Hailiang Huang

Missed it: got there for the questions.

Tarjinder Singh

They built a browser for seeing the rare variants and the exome data. Not available yet.

Rujia Dai

Ying Ji

Bpred and Gpred genes have different expression over development: they intersect at birth.

Kiran Girdhar

  • Looked at enhancers too.
  • Question from the audience about the differential shapes of the peaks between cases and controls.
  • Will look at QTLs after ASHG18.

Siwei Zhang

Looked at SNPs associated with ATAC-seq data (ASoC ?).

Used CRISPR to perturbe noncoding variants linked to SCZD risk: the ASoC SNPs.

Then used single cell (10x Genomics) to measure expression.

Other (morning)

Afternoon awards

Eric Lander

Jan M. Friedman

Presidential Symposium

John Hawks

Himla Soodyall

Ambroise Wonkman

Diversity

Trolls :/

Misc

This is hard. Some don’t mention the methods to avoid this issue, but then it becomes a “black box”. I guess that it can also be a “black box” if they don’t explain a bit what the model is/does. /shrug

Acknowledgements

This blog post was made possible thanks to:

and everyone that I met at the tweetup

References

## Warning: partial match of 'len' to 'lengths'

[1] C. Boettiger. knitcitations: Citations for ‘Knitr’ Markdown Files. R package version 1.0.8. 2017. URL: https://CRAN.R-project.org/package=knitcitations.

[2] G. Csárdi, R. core, H. Wickham, W. Chang, et al. sessioninfo: R Session Information. R package version 1.1.1. 2018. URL: https://CRAN.R-project.org/package=sessioninfo.

[3] A. Oleś, M. Morgan and W. Huber. BiocStyle: Standard styles for vignettes and other Bioconductor documents. R package version 2.10.0. 2018. URL: https://github.com/Bioconductor/BiocStyle.

[4] Y. Xie, A. P. Hill and A. Thomas. blogdown: Creating Websites with R Markdown. ISBN 978-0815363729. Boca Raton, Florida: Chapman and Hall/CRC, 2017. URL: https://github.com/rstudio/blogdown.

Reproducibility

## ─ Session info ───────────────────────────────────────────────────────────────────────────────────────────────────────
##  setting  value                       
##  version  R version 3.5.1 (2018-07-02)
##  os       macOS Mojave 10.14.2        
##  system   x86_64, darwin15.6.0        
##  ui       X11                         
##  language (EN)                        
##  collate  en_US.UTF-8                 
##  ctype    en_US.UTF-8                 
##  tz       America/New_York            
##  date     2019-02-04                  
## 
## ─ Packages ───────────────────────────────────────────────────────────────────────────────────────────────────────────
##  package       * version date       lib source                            
##  assertthat      0.2.0   2017-04-11 [1] CRAN (R 3.5.0)                    
##  bibtex          0.4.2   2017-06-30 [1] CRAN (R 3.5.0)                    
##  BiocManager     1.30.4  2018-11-13 [1] CRAN (R 3.5.0)                    
##  BiocStyle     * 2.10.0  2018-10-30 [1] Bioconductor                      
##  blogdown        0.10    2019-01-09 [1] CRAN (R 3.5.1)                    
##  bookdown        0.9     2018-12-21 [1] CRAN (R 3.5.0)                    
##  cli             1.0.1   2018-09-25 [1] CRAN (R 3.5.0)                    
##  colorout      * 1.2-0   2018-05-03 [1] Github (jalvesaq/colorout@c42088d)
##  crayon          1.3.4   2017-09-16 [1] CRAN (R 3.5.0)                    
##  digest          0.6.18  2018-10-10 [1] CRAN (R 3.5.0)                    
##  evaluate        0.12    2018-10-09 [1] CRAN (R 3.5.0)                    
##  htmltools       0.3.6   2017-04-28 [1] CRAN (R 3.5.0)                    
##  httr            1.4.0   2018-12-11 [1] CRAN (R 3.5.0)                    
##  jsonlite        1.6     2018-12-07 [1] CRAN (R 3.5.0)                    
##  knitcitations * 1.0.8   2017-07-04 [1] CRAN (R 3.5.0)                    
##  knitr           1.21    2018-12-10 [1] CRAN (R 3.5.1)                    
##  lubridate       1.7.4   2018-04-11 [1] CRAN (R 3.5.0)                    
##  magrittr        1.5     2014-11-22 [1] CRAN (R 3.5.0)                    
##  plyr            1.8.4   2016-06-08 [1] CRAN (R 3.5.0)                    
##  R6              2.3.0   2018-10-04 [1] CRAN (R 3.5.0)                    
##  Rcpp            1.0.0   2018-11-07 [1] CRAN (R 3.5.0)                    
##  RefManageR      1.2.0   2018-04-25 [1] CRAN (R 3.5.0)                    
##  rmarkdown       1.11    2018-12-08 [1] CRAN (R 3.5.0)                    
##  sessioninfo   * 1.1.1   2018-11-05 [1] CRAN (R 3.5.0)                    
##  stringi         1.2.4   2018-07-20 [1] CRAN (R 3.5.0)                    
##  stringr         1.3.1   2018-05-10 [1] CRAN (R 3.5.0)                    
##  withr           2.1.2   2018-03-15 [1] CRAN (R 3.5.0)                    
##  xfun            0.4     2018-10-23 [1] CRAN (R 3.5.0)                    
##  xml2            1.2.0   2018-01-24 [1] CRAN (R 3.5.0)                    
##  yaml            2.2.0   2018-07-25 [1] CRAN (R 3.5.0)                    
## 
## [1] /Library/Frameworks/R.framework/Versions/3.5devel/Resources/library

Related

comments powered by Disqus