🎬Introduction to Biological Network Analysis
👩🏫Mini Courses from Donna Slonim at Tufts University
Session 1: Network Basics and Properties
Session 2: From Graphs to Function
Session 3: Identifying Network Modules
Session 4: Network Alignment and Querying
📲Channel: @Bioinformatics
👩🏫Mini Courses from Donna Slonim at Tufts University
Session 1: Network Basics and Properties
Session 2: From Graphs to Function
Session 3: Identifying Network Modules
Session 4: Network Alignment and Querying
📲Channel: @Bioinformatics
🧑🎨 Tasks, Techniques, and Tools for Genomic Data Visualization
https://onlinelibrary.wiley.com/doi/full/10.1111/cgf.13727
📲Channel: @Bioinformatics
https://onlinelibrary.wiley.com/doi/full/10.1111/cgf.13727
📲Channel: @Bioinformatics
💊Drug Repurposing for the Treatment of COVID-19: A Knowledge Graph Approach
🖇 https://onlinelibrary.wiley.com/doi/full/10.1002/adtp.202100055
A COVID-19 knowledge graph by integrating 14 public bioinformatic databases containing information on drugs, genes, proteins, viruses, diseases, symptoms and their linkages is developed. An algorithm is developed to extract hidden linkages connecting drugs and COVID-19 from the knowledge graph, to generate and rank proposed drug candidates for repurposing as treatments by integrating three scores for each drug: motif scores, knowledge graph PageRank scores, and knowledge graph embedding scores. The knowledge graph contains over 48 000 nodes and 13 37 000 edges, including 13 563 molecules in the DrugBank database. From the 5624 molecules identified by the motif-discovery algorithms, ranking results show that 112 drug molecules had the top 2% scores, of which 50 existing drugs with other indications approved by health administrations reported.
📲Channel: @Bioinformatics
🖇 https://onlinelibrary.wiley.com/doi/full/10.1002/adtp.202100055
A COVID-19 knowledge graph by integrating 14 public bioinformatic databases containing information on drugs, genes, proteins, viruses, diseases, symptoms and their linkages is developed. An algorithm is developed to extract hidden linkages connecting drugs and COVID-19 from the knowledge graph, to generate and rank proposed drug candidates for repurposing as treatments by integrating three scores for each drug: motif scores, knowledge graph PageRank scores, and knowledge graph embedding scores. The knowledge graph contains over 48 000 nodes and 13 37 000 edges, including 13 563 molecules in the DrugBank database. From the 5624 molecules identified by the motif-discovery algorithms, ranking results show that 112 drug molecules had the top 2% scores, of which 50 existing drugs with other indications approved by health administrations reported.
📲Channel: @Bioinformatics
🔖Very good introduction to RNA-seq
Including: 1)Prepare a sequencing library 2)Sequence 3)Data analysis
✍️ Level: Elementary
https://www.youtube.com/watch?v=tlf6wYJrwKY
📲Channel: @Bioinformatics
Including: 1)Prepare a sequencing library 2)Sequence 3)Data analysis
✍️ Level: Elementary
https://www.youtube.com/watch?v=tlf6wYJrwKY
📲Channel: @Bioinformatics
YouTube
StatQuest: A gentle introduction to RNA-seq
RNA-seq may sound mysterious, but it's not. Here's go over the main ideas behind how it's done and how the data is analyzed.
NOTE: If you want to learn about ChIP-seq, check out the StatQuest: https://youtu.be/nkWGmaYRues
For a complete index of all the…
NOTE: If you want to learn about ChIP-seq, check out the StatQuest: https://youtu.be/nkWGmaYRues
For a complete index of all the…
💪Proteomics reveals how exercise increases the efficiency of muscle energy production
🌐https://phys.org/news/2021-05-proteomics-reveals-efficiency-muscle-energy.html
📲Channel: @Bioinformatics
🌐https://phys.org/news/2021-05-proteomics-reveals-efficiency-muscle-energy.html
📲Channel: @Bioinformatics
phys.org
Proteomics reveals how exercise increases the efficiency of muscle energy production
Mitochondria are the cell's power plants and produce the majority of a cell's energy needs through an electrochemical process called electron transport chain coupled to another process known as oxidative ...
🧑🏫Workshop RNA-Seq using high-performance computing
🌐https://hbctraining.github.io/Intro-to-rnaseq-hpc-salmon-flipped/schedule/links-to-lessons.html
💥Learning Objectives
▫️Understand the necessity for, and use of, the command line interface (bash) and HPC for analyzing high-throughput sequencing data.
▫️Understand best practices for designing an RNA-seq experiment and analysis the resulting data.
📲Channel: @Bioinformatics
🌐https://hbctraining.github.io/Intro-to-rnaseq-hpc-salmon-flipped/schedule/links-to-lessons.html
💥Learning Objectives
▫️Understand the necessity for, and use of, the command line interface (bash) and HPC for analyzing high-throughput sequencing data.
▫️Understand best practices for designing an RNA-seq experiment and analysis the resulting data.
📲Channel: @Bioinformatics
🧰 Resources for Systems/Network Biology
▫️Including: Tools, Genome Annotation, Orthology Identification, Protein Interaction, Microarray Links, Mass spectrometry-based proteomics, Species Interaction Data, Kinome and Cancer Data, Yeast Links, Worm Links, Fly Links, Mycobacteria Links, Malaria Links, Arabidopsis and other model plant Links, Rice and other crop Links, Mouse Links, Human Links, ...
🌐https://www.cs.ucdavis.edu/~filkov/classes/289l-W11/NetworkResources.htm
📲Channel: @Bioinformatics
▫️Including: Tools, Genome Annotation, Orthology Identification, Protein Interaction, Microarray Links, Mass spectrometry-based proteomics, Species Interaction Data, Kinome and Cancer Data, Yeast Links, Worm Links, Fly Links, Mycobacteria Links, Malaria Links, Arabidopsis and other model plant Links, Rice and other crop Links, Mouse Links, Human Links, ...
🌐https://www.cs.ucdavis.edu/~filkov/classes/289l-W11/NetworkResources.htm
📲Channel: @Bioinformatics
👍1
📝 Loops & Strands e-Magazine
LLB SCHOOL (Lets Learn Bio-ITSchool) , France
is looking for scientific Reviewers and editors
💥Required Qualifications :
Btech with experience / Post graduates or PhD / above in any of the below domains:
▫️Bioinformatics (OMICS studies, structure bioinformatics, programming and data science)
▫️Biotechnology/Environmental/Food Science
▫️Plantscience/Agriculture/Agro-Informatics
▫️Intellectual Property Rights
🔹 Candidates with prior experience in reviewing and editing is preferred
⏰ Notice period : Immediate joiners
✅ P. S : First 6 months will act as volunteership, following the position is offered based on the performance
✉️ Interested candidates share your CV & very short motivation letter to loopsnstrands@llbschool.org
📲Channel: @Bioinformatics
LLB SCHOOL (Lets Learn Bio-ITSchool) , France
is looking for scientific Reviewers and editors
💥Required Qualifications :
Btech with experience / Post graduates or PhD / above in any of the below domains:
▫️Bioinformatics (OMICS studies, structure bioinformatics, programming and data science)
▫️Biotechnology/Environmental/Food Science
▫️Plantscience/Agriculture/Agro-Informatics
▫️Intellectual Property Rights
🔹 Candidates with prior experience in reviewing and editing is preferred
⏰ Notice period : Immediate joiners
✅ P. S : First 6 months will act as volunteership, following the position is offered based on the performance
✉️ Interested candidates share your CV & very short motivation letter to loopsnstrands@llbschool.org
📲Channel: @Bioinformatics
🎞 Machine Learning in Computational Biology
⏺Recorded sessions from virtual conference
🌐https://sites.google.com/cs.washington.edu/mlcb2020/
📲Channel: @Bioinformatics
⏺Recorded sessions from virtual conference
🌐https://sites.google.com/cs.washington.edu/mlcb2020/
📲Channel: @Bioinformatics
🏎 Fourth Bioinformatics Contest – an online programming competition
In June 2021 Bioinformatics Institute, ITMO University, Rosalind, and Stepik are organizing the above event
✍️Registration is already open
https://stepik.org/course/91751
🗓One-week Qualification Round starts on June 12.
The Final Round will last 24 hours on June 26.
Both rounds will be held online.
💥Last time more than 3000 people from 84 countries worldwide participated in the contest.
🔴 If you enjoy solving complex problems and have some background in Computer Science, Bioinformatics, and Molecular Biology do not hesitate to sign up!
ℹ️More details
https://bioinf.me/en/contest
📲Channel: @Bioinformatics
In June 2021 Bioinformatics Institute, ITMO University, Rosalind, and Stepik are organizing the above event
✍️Registration is already open
https://stepik.org/course/91751
🗓One-week Qualification Round starts on June 12.
The Final Round will last 24 hours on June 26.
Both rounds will be held online.
💥Last time more than 3000 people from 84 countries worldwide participated in the contest.
🔴 If you enjoy solving complex problems and have some background in Computer Science, Bioinformatics, and Molecular Biology do not hesitate to sign up!
ℹ️More details
https://bioinf.me/en/contest
📲Channel: @Bioinformatics
📈Trends in the development of miRNA bioinformatics tools
🌐https://academic.oup.com/bib/article/20/5/1836/5047127
📲Channel: @Bioinformatics
🌐https://academic.oup.com/bib/article/20/5/1836/5047127
📲Channel: @Bioinformatics
🦠 Are SARS-CoV-2 mutations mathematically predictable?
https://www.news-medical.net/news/20210531/Could-a-mathematical-application-of-information-theory-identify-and-predict-SARS-CoV-2-mutations.aspx
📲Channel: @Bioinformatics
https://www.news-medical.net/news/20210531/Could-a-mathematical-application-of-information-theory-identify-and-predict-SARS-CoV-2-mutations.aspx
📲Channel: @Bioinformatics
News-Medical.net
Could a mathematical application of information theory identify and predict SARS-CoV-2 mutations?
An interesting new study by researchers at the University of Portsmouth, UK, describes the use of a mathematical method to sequence genomes based on information theory. The method offers an alternative to clinical techniques, allowing mutations to be detected…
👓 Different view of learning bioinformatics
https://www.nature.com/articles/d41586-021-01485-y
📲Channel: @Bioinformatics
https://www.nature.com/articles/d41586-021-01485-y
📲Channel: @Bioinformatics
Nature
A cartoon guide to bioinformatics by a novice coder
Nature - Ed Himelblau was a cartoonist before he learnt to write code. Now, the geneticist hopes his drawings will help others who embrace bioinformatics later in their careers.
👨🏫 Expression Analysis, Functional Enrichment, and Network Inference
from John Quackenbush
▫️Relatively old but still valuable presentation
https://www.youtube.com/watch?v=tYLd1LtxYiI
📲Channel: @Bioinformatics
from John Quackenbush
▫️Relatively old but still valuable presentation
https://www.youtube.com/watch?v=tYLd1LtxYiI
📲Channel: @Bioinformatics
YouTube
Expression Analysis, Functional Enrichment, and Network Inference - John Quackenbush (2016)
April 27, 2016 - Current Topics in Genome Analysis 2016
More: http://www.genome.gov/CTGA2016
More: http://www.genome.gov/CTGA2016
👨🏫 Registration is open for Joint Workshop by: EMBL- European Bioinformatics Institute and DE<code>LIFE
💥 Ensembl Genome Browser Training💥
🗓 Duration: June 18 to June 29, 2021
✍️ Registration Link
https://decodelife.org
💲 Fees: Rupees 1000 for Indian Participants /USD 30 for international Participants
💥Key Features :
▫️Course Instructor from EMBL- EBI
▫️E- Certificate of Participation
▫️Videos recording of each session will be shared with participants.
📲Channel: @Bioinformatics
💥 Ensembl Genome Browser Training💥
🗓 Duration: June 18 to June 29, 2021
✍️ Registration Link
https://decodelife.org
💲 Fees: Rupees 1000 for Indian Participants /USD 30 for international Participants
💥Key Features :
▫️Course Instructor from EMBL- EBI
▫️E- Certificate of Participation
▫️Videos recording of each session will be shared with participants.
📲Channel: @Bioinformatics
💥 New horizons with CRISPR
https://phys.org/news/2021-06-synthetic-species-confinable-gene.html
📲Channel: @Bioinformatics
https://phys.org/news/2021-06-synthetic-species-confinable-gene.html
📲Channel: @Bioinformatics
phys.org
Synthetic SPECIES developed for use as a confinable gene drive
CRISPR-based technologies offer enormous potential to benefit human health and safety, from disease eradication to fortified food supplies. As one example, CRISPR-based gene drives, which are engineered ...
💉 EHR Precision Medicine
📹Recorded workshop from Yale School of Medicine
🌐https://medicine.yale.edu/media-player/ehr-precision-medicine/
📲Channel: @Bioinformatics
📹Recorded workshop from Yale School of Medicine
🌐https://medicine.yale.edu/media-player/ehr-precision-medicine/
📲Channel: @Bioinformatics
👨💻 A Python package for RNA-Seq workflows
🌐https://academic.oup.com/nargab/article/3/2/lqab049/6290623
▫️All source code is freely available at
https://github.com/urmi-21/pyrpipe
▫️The package can be installed from the source, from PyPI
https://pypi.org/project/pyrpipe
or from bioconda
https://anaconda.org/bioconda/pyrpipe
▫️Documentation is available at
http://pyrpipe.rtfd.io
📲Channel: @Bioinformatics
🌐https://academic.oup.com/nargab/article/3/2/lqab049/6290623
▫️All source code is freely available at
https://github.com/urmi-21/pyrpipe
▫️The package can be installed from the source, from PyPI
https://pypi.org/project/pyrpipe
or from bioconda
https://anaconda.org/bioconda/pyrpipe
▫️Documentation is available at
http://pyrpipe.rtfd.io
📲Channel: @Bioinformatics
⚛️ Coming the future of the use of atomistic computer simulations in understanding gene expression mechanisms in development and disease
🌐https://www.eurekalert.org/pub_releases/2021-06/hi-csv052721.php
📲Channel: @Bioinformatics
🌐https://www.eurekalert.org/pub_releases/2021-06/hi-csv052721.php
📲Channel: @Bioinformatics
EurekAlert!
Computer simulations visualize in atomic detail how DNA opens
Researchers from the Hubrecht Institute in Utrecht (The Netherlands) and the Max Planck Institute for Molecular Biomedicine in Münster (Germany) used computer simulations to reveal in atomic detail how a short piece of DNA opens while it is tightly wrapped…
🎬 learn the day-to-day responsibilities and most important job skills for seven common bioinformatics careers
🌐https://www.northeastern.edu/graduate/blog/top-bioinformatics-careers/
📲Channel: @Bioinformatics
🌐https://www.northeastern.edu/graduate/blog/top-bioinformatics-careers/
📲Channel: @Bioinformatics
Northeastern University Graduate Programs
7 Popular Bioinformatics Careers
Popular bioinformatics careers offer a chance to work in the lab, hospital, or field. Learn about the skills & duties of bioinformatics professionals.
📖 Modern Statistics for Modern Biology
💥Free Online Book
The aim of this book is to enable scientists working in biological research to quickly learn many of the important ideas and methods that they need to make the best of their experiments and of other available data. The book takes a hands-on approach. The narrative in each chapter is driven by classes of questions, or by certain data types. Methods and theory are introduced on a need-to-know basis.
🌐 Read online:
http://web.stanford.edu/class/bios221/book/introduction.html
🧰 Book supplements
http://web.stanford.edu/class/bios221/book/
📲Channel: @Bioinformatics
💥Free Online Book
The aim of this book is to enable scientists working in biological research to quickly learn many of the important ideas and methods that they need to make the best of their experiments and of other available data. The book takes a hands-on approach. The narrative in each chapter is driven by classes of questions, or by certain data types. Methods and theory are introduced on a need-to-know basis.
🌐 Read online:
http://web.stanford.edu/class/bios221/book/introduction.html
🧰 Book supplements
http://web.stanford.edu/class/bios221/book/
📲Channel: @Bioinformatics