Ming
Feb 28 β€’ 12 tweets β€’ 4 min read
There was little online material to learn bioinformatics 10 years ago when I started.

I curated ten resources to learn bioinformatics for FREE πŸ§΅πŸ‘‡
1/ Data Analysis for the Life Sciences Series buff.ly/3Z7F1ha by Rafa at DFCI. you can find the courses on Edx buff.ly/3mapP4m
2/ buff.ly/3SDZasD Applied Computational Genomics Course at UU
3/ bioinformaticsalgorithms.org If you want to learn algorithms, You can find the video classes at buff.ly/3EKUVpE Image
4/ Applied Bioinformatics buff.ly/3EM7Ibd by Istvan, the creator of biostars buff.ly/3EI2hKk. I've written a ChIP-seq chapter for biostars, and grab the PDF for free at buff.ly/3Z5daxT
5/ Introduction to Bioinformatics and Computational Biology buff.ly/3kyUyri by
Shirley Liu.
I am glad to contribute a little myself.
6/ data carpentry workshops buff.ly/3Y29lZ3 I am honored to serve as the genomics curriculum committee chair
7/ JHU EN.601.749: Computational Genomics: Applied Comparative Genomics buff.ly/3KIiItR
8/ Introduction to Computational Biology by Mike Love buff.ly/3KHYVLa
9/ [MIT Computational Biology: Genomes, Networks, Evolution, Health - Fall 2018 - 6.047/6.878/HST.507](buff.ly/3kAiM4g) by Manolis
10/
Open Source Society University

πŸ”¬ Path to a free self-taught education in Bioinformatics!

buff.ly/3g5F7k1
#Bioinformatics
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More from @tangming2005

Feb 23
Spatial transcriptome is the next wave after single-cell RNAseq. Resources to bookmark to get into the field πŸ‘‡ 🧡
1/ 8 Review papers:
* [The emerging landscape of spatial profiling technologies](buff.ly/3cwcApw)
* [The expanding vistas of spatial transcriptomics](buff.ly/3m1x9zb)
* [Exploring tissue architecture using spatial transcriptomics](buff.ly/3Sq7Z9f)
2/ [Statistical and machine learning methods for spatially resolved transcriptomics data analysis](buff.ly/3Ew47hx).
* [Spatial omics and multiplexed imaging to explore cancer biology](buff.ly/3koxYkU)
Read 12 tweets
Feb 16
People always ask how the protein is expressed if I show the RNA data. Here are the 6 resources for protein data πŸ‘‡πŸ§΅
1/ CPTAC, the biggest database for cancer proteomic.datacommons.cancer.gov/pdc/ python package to access it github.com/PayneLab/cptac
2/ PRIDE (PRoteomics IDEntifications) is a rich resource of mass spectrometry based proteomics data (ebi.ac.uk/pride/). It has cancer data and more.
Read 6 tweets
Jan 30
Git is the most popular tool for version control your source code.
But the learning curve can be steep.
Here are the 10 tips for you 🧡 πŸ‘‡ along with learning resource links.
compiled at buff.ly/3Jqxh4W
1/ Several basic commands will serve you a long way:
git clone
git add
git commit -m
git push

Those are enough to get you started. To be honest, those are still the most frequent commands I use.
2/ understand git and github. You use git to track files locally, and github can host your repos. You can start with the github skill page buff.ly/3tO2iaf
gitlab buff.ly/3JlGA69 is an alternative to github
Read 12 tweets
Jan 28
32 resources for (to-be) faculty on salary negotiation, grant writing, funding, and lab management. A thread 🧡 πŸ‘‡
1/ Tips for negotiating salary and startup for newly-hired tenure-track faculty](buff.ly/3Y0GTY0)
2/ [Creating accessibility in academic negotiations](buff.ly/3Y1wafP)
Read 33 tweets
Jan 16
1/ If someone tells you that you can learn computation overnight, it is a lie. What I wish I had known 10 years ago with resource linksπŸ‘‡πŸ§΅ #rstats #computationalbiology
2/ Spend time learning Linux commands. Fancy tools can become obsolete tomorrow, and Linux skills persist.
I started with this book linuxcommand.org/tlcl.php #unix
3/ Learn a language and learn it well. It does not matter if you pick R or python. If you can use it to solve your practical problems in the lab, that will be good. There is so much data wrangling to do, start with r4ds.had.co.nz #rstats
Read 11 tweets
Jan 10
1/ What people think bioinformatician do:
credit: @torstenseemann
2/

what I really do πŸ‘‡

google "ylim without removing data in ggplot" to find coord_cartesian(ylim=c(0, 7)) #rstats every time!
3/ This StackOverflow post has over 1 million views and I contributed many times

by googling: how to rotate x-axis label

stackoverflow.com/questions/1330…
Read 5 tweets

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