Awesome Curated Collection of Resources around Bioinformatics, Data Science, ML, etc.
The term "Patog" (more precisely, "Patogh") is a Persian word that means "gathering place" or "social hangout". PATOG is a central gathering place where individuals interested in bioinformatics, computational biology, data science, machine learning, and related fields can find valuable information and staying current with the latest advancements.
⚠️ PATOG is UNDER MAINTENANCE & UPDATES. Please prioritize creating issues over submitting pull requests during this process.
Checkout PATOG Wiki for the Bioinformatics and Computational Biology Learning Roadmap!
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Prerequisites
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Main Sections
- Omics Data Analysis and Interpretation
- Modeling and Simulation
- Integrated Platforms, Tools, and Technologies
- Specialized Topics
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Additional Resources
- YouTube Channels
- Persian Resources (بنمایگان پارسی)
- Open-Source Projects and Repositories
- Courses
- Books
- Scientific Journals & Publications
- Vignettes & Websites
- R packages
- Miscellaneous
- Topic Based
- Conferences, Workshops, and Webinars
- Career Guidance and Job Opportunities
- Networking and Collaboration
- Regular Updates
.... (needs to be completed)
Bioinformatics.ca is dedicated to creating and maintaining a skilled bioinformatics workforce through open content. Our workshops are recorded and posted here and our materials can be found at https://bioinformaticsdotca.github.io.
Really a good page!
Bioinformatics tutorials with a focus on next-generation sequencing analysis. Topics cover RNAseq, single-cell RNAseq, linux/shell usage, python, R, phylogenetics, alignments, and more.
Genomics, Transcriptomics, Linuc, etc.
a new page uploading bioinformatics videos(Suggested)
The channel is dedicated for developing skilled bioinformatics students and researchers. Our lectures and tutorials from interdisciplinary fields are recorded and uploaded here. The administrator and main instructor of this channel is a Professor of Bioinformatics in a renowned university of Pakistan.
Bioinformatics discussions and training videos.Hosted by Maria Nattestad.
a new page uploading bioinformatics videos
World-class geneticist, Lecturencer, ESPRIT Fanboy, and Associate Professor in Bioinformatics at Northumbria University. I live-stream my lectures (R programming & Bioinformatics) for MSc and PhD students on YouTube. I create educational streams about my work on genetics and multi-omics analysis using amongst others DNA and RNA sequencing techniques. Occasionally, you can find me playing games on my Twitch.tv channel.
a YouTube channel dedicated to promoting and propagating anything scientific about language in general and quantitative and assessment methods in particular.
Learn biopython with her + extra bioinformatics stuff!
"BIOINFORMATICA" is an initiative to provide quality videos on bioinformatics related topics for a better understanding of the students who are studying bioinformatics or those who want to join bioinformatics.
This channel aims to provide best possible information related to Bioinformatics and data science.
This Channels provides tutorials on bioinformatics and big data analysis. The content is suitable for both beginners and advanced learners.
Gene Expression Analysis
dedicated to all things Programming, Bioinformatics, Machine Learning and Open-Source Software.
Mostly Genomics
Genomics and Transcriptomics (Suggested)
The project aims to establish a X-omics research infrastructure across the Netherlands consisting of several existing facilities with various expertise’s related to molecular biology research (genomics, proteomics, metabolomics and data integration & analysis).
The IIHG is a statewide resource that promotes clinical care, research, and education in human genetics and is focused on bringing personalized genomic medicine to the state of Iowa.
Bioinformatics and R
Very useful videos about biochemistry and Bioinformatics (especcially MD and structural biology) [Thanks to Amir].
The Immune Epitope Database and Analysis Resource (IEDB) serves the scientific community as an online, freely available, one-stop resource to advance immunology research.
Hi, Dr. Sanket Bapat here, I make Bioinformatics video lectures and tutorials for students and everyone who is new to this field!
Our core technology is a research platform design to simplify processing, integration and mining of big biomedical data - especially molecular data like NGS, Mass-Spec and structural biology.
I am founder and CEO of the data analytics company, Bioinfo Solutions LLC, where I specialize in extracting wisdom out of a sea of information.
a list of free courses about bioinformatics in persian. If you are at beginner level, consider learning first from: this and then this
This is the link for the playlists in TUMS Immuno Aparat Channel. Consider viewing the courses based on your need!
Learn structural biology with dear Milad for free!
Learn computational biology with me! (in progress)
This is a solid path for those of you who want to complete a Bioinformatics course on your own time, for free, with courses from the best universities in the World.
a great curated collection series for many things...
Thanks to https://t.me/Genome_X/99 , here are three selected awsome repo for the field of Computational Biology and Bioinformatics:
A curated list of resources for learning bioinformatics.
A knowledge collection of databases, software and papers related to computational biology.
A curated list of awesome Bioinformatics software, resources, and libraries. Mostly command line based, and free or open-source.
A Curated resources for Data Visualization, Drawing & Publishing in R
_By Bioinformatics Training at the Harvard Chan Bioinformatics Core: hbctraining.github.io/main
MIT OCW / This course is an introduction to computational biology emphasizing the fundamentals of nucleic acid and protein sequence and structural analysis; it also includes an introduction to the analysis of complex biological systems. Topics covered in the course include principles and methods used for sequence alignment, motif finding, structural modeling, structure prediction and network modeling, as well as currently emerging research areas. 7.91J | Spring 2014 | Graduate
This is the website for “Hands-On Programming with R”. This book will teach you how to program in R, with hands-on examples. He wrote it for non-programmers to provide a friendly introduction to the R language.
This is the website for the first edition of “R for Data Science”, published January 2017.
This is the website for the work-in-progress 2nd edition of “R for Data Science”. This book will teach you how to do data science with R: You’ll learn how to get your data into R, get it into the most useful structure, transform it and visualize.
This is the companion website for “Advanced R”, a book in Chapman & Hall’s R Series. The book is designed primarily for R users who want to improve their programming skills and understanding of the language.
This is the website for 2nd edition of “Advanced R”, a book in Chapman & Hall’s R Series. The book is designed primarily for R users who want to improve their programming skills and understanding of the language.
This is the on-line version of work-in-progress 3rd edition of “ggplot2: elegant graphics for data analysis” published by Springer.
This book is full of how-to recipes, each of which solves a specific problem. The recipe includes a quick introduction to the solution followed by a discussion that aims to unpack the solution and give you some insight into how it works. We know these recipes are useful and we know they work, because we use them ourselves.
This book serves as an introduction of text mining using the tidytext package and other tidy tools in R. The functions provided by the tidytext package are relatively simple; what is important are the possible applications. Thus, this book provides compelling examples of real text mining problems.
Joe G. Greener, Shaun M. Kandathil, Lewis Moffat & David T. Jones Nature Reviews Molecular Cell Biology volume 23, pages40–55 (2022)
Anders, S., Huber, W. Genome Biol 11, R106 (2010)
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Integration of RNA-Seq data with heterogeneous microarray data for breast cancer profiling
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A benchmark of batch-effect correction methods for single-cell RNA sequencing data
clusterProfiler is an R package that implements methods to analyze and visualize functional profiles of genomic coordinates (supported by ChIPseeker), gene and gene clusters
On this site, you will find tutorials written for various molecular dynamics programs. This site is still very much under construction, so please check back frequently for updates.
MOOC.org is an extension of edX.org, a leader in online courses. Whether you're interested in learning for yourself, leveraging online courses to educate your workforce, or creating a MOOC, edX can help.
Creates a volcano plot for DNA methylation or expression
As it says in the title!
The scientific illustration channel for scientists
Ideas for your design + learn basic biology
This YouTube Channel is designed to provide students with a basic understanding of the concepts of human genetics and genomics, in preparation for later application in the context of human development and congenital and acquired disease.
They are dedicated to providing you with the highest quality and most up-to-date lectures in the fields of general biology, microbiology, immunology, pharmacology, bioinformatics, and other life sciences_
Just a postdoc trying to make biochemistry fun and accessible for all.
By NBIS - National Bioinformatics Infrastructure Sweden
Omics Data Analysis by Laurent Gatto
EBI , Functional genomics II, Common technologies and data analysis methods
Thanks to Amir
Thanks to Mohammad
NPTEL-NOC IITM
A Good Playlist by Lana Dominkovic for biopython
I think this is a very useful file to learn and deepen your understanding of the subject. Obtained from: biopython.org
Feel free to contribute to this list by submitting a pull request or opening an issue with your suggestions More information at CONTRIBUTING.md
I hope this provide valuable resources for learning and staying up-to-date with the latest advancements in these fields. Happy learning!
PATOG by ArashBioinfo