Mazumder: Created page with "Bioinformatics and Biochemistry MS and PhD Student Resources = Contacts = MS Program Director, Anelia Horvath - horvatha@gwu.edu Bioinformatics Program Co-Director, Raja Mazumder - mazumder_lab@gwu.edu = Recommendations: = * Consider purchasing Bioinformatics Data Skills (https://vincebuffalo.com/book/) and go over Part I and Part II before the first day of class. For those interested, GW's digital library has a copy of Bioinformatics Data Skills:..."

2025-08-06T17:22:45Z

Created page with "Bioinformatics and Biochemistry MS and PhD Student Resources = Contacts = MS Program Director, Anelia Horvath - horvatha@gwu.edu Bioinformatics Program Co-Director, Raja Mazumder - mazumder_lab@gwu.edu = Recommendations: = * Consider purchasing Bioinformatics Data Skills (<nowiki>https://vincebuffalo.com/book/</nowiki>) and go over Part I and Part II before the first day of class. For those interested, GW's digital library has a copy of Bioinformatics Data Skills:..."

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Bioinformatics and Biochemistry MS and PhD Student Resources

= Contacts =
MS Program Director, Anelia Horvath - horvatha@gwu.edu

Bioinformatics Program Co-Director, Raja Mazumder - mazumder_lab@gwu.edu

= Recommendations: =

* Consider purchasing Bioinformatics Data Skills (<nowiki>https://vincebuffalo.com/book/</nowiki>) and go over Part I and Part II before the first day of class. For those interested, GW's digital library has a copy of Bioinformatics Data Skills: Reproducible and Robust Research with Open Source Tools available. Use the following link and sign in with GW credentials to access the ebook. <nowiki>https://ebookcentral.proquest.com/lib/gwu/reader.action?docID=3564550</nowiki>
* Harper's Illustrated Biochemistry: Please read Sections I, II, VII and Chapters 46, 56, 57, 58. GW students have free access at - <nowiki>https://accessmedicine.mhmedical.com/content.aspx?bookid=3220&sectionid=268299968</nowiki>

= Important Links & Information =
All BMM students are strongly encouraged to join Linkedin group: <nowiki>https://www.linkedin.com/groups/8313079/</nowiki>

To join make sure your profile says MS in Bioinformatics and Molecular Biochemistry at GW.

= Overview =
Please see the tutorials section below to brush up on skills, programming languages, and analysis tools.

= Useful tutorials =
Use the resources below to learn data analysis and visualization skills.

== GW Workshops/Support ==

* Take GW Library sponsored Python, R, JavaScript, Tableau, OpenRefine Workshops. This is really important for all bioinformatics students (especially python, R, JavaScript).
* Free one-on-one Coding Consultations to anyone at GW who would like to meet with to discuss a particular coding topic or problem, including JavaScript: <nowiki>https://calendly.com/gwul-coding/</nowiki>
* Students wanting to learn about coding are also invited to join the GW Coders group (<nowiki>https://gwcoders.github.io/</nowiki>) this fall.

CFDE Bioinformatics workshops

* CFDE provides training for various bioinformatics tools and analysis including basic unix and linux commands. Students are encouraged to join these workshops throughout the year: <nowiki>https://training.nih-cfde.org/en/latest/</nowiki>

== Learning programming languages ==

* Take online python, R, JavaScript (key skills to have as a bioinformatician) courses at CodeAcademy (<nowiki>https://www.codecademy.com</nowiki>), freeCodeCamp (<nowiki>https://www.freecodecamp.org/</nowiki>) or JavaScript for Data Science (<nowiki>https://js4ds.org/</nowiki>)

Additional resources

* Python courses for beginners (free):
** <nowiki>https://www.youtube.com/watch?v=rfscVS0vtbw</nowiki>
** <nowiki>https://www.youtube.com/watch?v=_uQrJ0TkZlc</nowiki>
** <nowiki>https://www.udacity.com/course/introduction-to-python--ud1110</nowiki>
** <nowiki>https://www.learnpython.org/</nowiki> (<nowiki>https://www.datacamp.com/courses/intro-to-python-for-data-science?utm_source=learnpython_com&utm_campaign=learnpython_tutorials</nowiki>)
** <nowiki>https://www.codecademy.com/catalog/language/python</nowiki> (<nowiki>https://www.codecademy.com/learn/learn-python-3</nowiki>)
* Python courses for (beginner/intermediate) (free/paid):
** <nowiki>https://www.codecademy.com/catalog/language/python</nowiki>
** <nowiki>https://www.udemy.com/course/complete-python-bootcamp/</nowiki> (comprehensive course)
** <nowiki>https://www.edx.org/professional-certificate/introduction-to-python-programming?index=product&queryID=6c3afa69576b337f9baf146031185fe1&position=3</nowiki>
* UCR R tutorial
* Computational Genomics in R - Computational Genomics with R (compgenomr.github.io)
* Bioinformatics and computational biology
** Harvard's STAT115 class by X. Shirley Liu is a great grad-level class for bioinformatics
** <nowiki>https://www.mathworks.com/matlabcentral/discussions/distance-learning/132907-teaching-learning-deep-learning-and-machine-learning-videos-and-content/?s_tid=mlc_lp_leaf</nowiki> MATLAB is a course to take over the summer or winter break to learn how to use Artificial Intelligence, Machine Learning, and Neural Networks

== Bioinformatics Projects ==
<nowiki>https://hivelab.biochemistry.gwu.edu/wiki/Volunteership_Fall_2025</nowiki>

== Linux basics ==

* Online course on Linux, Bash, Scripting and R: <nowiki>https://dmtrk.net/2SUU-14DIB-4F53EA044DAF46CB3X0082B0D42B4F1461C8BC/cr.aspx</nowiki>
* Linux for beginners: <nowiki>https://ubuntu.com/tutorials/command-line-for-beginners#1-overview</nowiki>
* Command Line Crash Course: <nowiki>https://www.youtube.com/playlist?list=PLCHnubFzFwjLDKwWQhH3BlGA9OasLKIFl%0AW</nowiki>
* Windows User - Set up Linux Virtual Machine: <nowiki>https://www.windowscentral.com/how-run-linux-distros-windows-10-using-hyper-v</nowiki>
* Linux Cheat Sheet: <nowiki>https://ryanstutorials.net/linuxtutorial/cheatsheet.php</nowiki>
* Shell scripting tutorial: <nowiki>https://youtu.be/GtovwKDemnI</nowiki>

= Open Opportunities =
Subscribe to linkedin group (<nowiki>https://www.linkedin.com/groups/8313079/</nowiki>) to learn about open opportunities. To join make sure your profile says MS in Bioinformatics and Molecular Biochemistry at GW.

= Past/Potential Mentors =
Mentors might have spots available and are looking for students: Please use links below to contact potential mentors:

GW Mentors: <nowiki>https://apps.smhs.gwu.edu/smhs/facultydirectory/biochemistry/faculty.cfm</nowiki>

Rong Li - Breast cancer research

Raja Mazumder - GWU HIVE-Lab - Bioinformatics

Brett Shook - Shook Lab - Immune Response

Anelia Horvath - MGPC - scRNA-seq

Wei Li - Children’s Hospital - Genome engineering, single cell genomics

Kazue Hashimoto-Torii - Children’s Hospital - Neurobiology

Vittorio Gallo - Children’s Hospital - Children’s Hospital - Neuroscience Research

Deepa Rastogi - Children’s Hospital - Obesity-related asthma

Inhee Chung - Anatomy and Regenerative Biology

Kathryn King - US Food and Drug Administration - Cancer Biology

Sabyasachi Sen, Medical Faculty Associates, Diabetes and HIV

Sydney Fu - GW Cancer Center, Cancer Biology

Daoud Meerzaman - NIH NCI

Vahan Simonyan - DNA-HIVE

Ilya Mazo - Argentys

Also see <nowiki>https://hivelab.biochemistry.gwu.edu/wiki/GW_Bioinformatics_Network</nowiki>

Bioinformatics Resources - Revision history