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ISMB 2022

Day 4, Highlights & Recap

Day 4: Highlights & Recap!


With only one day left, ISMB 2022 gave us a day starting off with a stellar keynote, time to discover with exhibitors, and then dove right into 9 different tracks of science. 

Highlights



Our fourth keynote address of the ISMB 2022 conference was from Dr. Ron Shamir, the ISCB Accomplishments by a Senior Scientist Award winner. Dr. Shamir’s talk was focused on the need for there to be a better understanding of disease. The current treatment methods in the medical field are a “one treatment fits all” approach, but what would be more beneficial to those in need of medical treatment, especially for cancer, would be a personalized diagnosis and a specific treatment tailored to the individual—and that is what Dr. Shamir’s research lab is hoping to better understand. They are aiming for a more intricate knowledge in basic science and medicine, with the goal of developing methods for personalized analysis. The suggested approach is for integrative methods, which will provide more robust findings overall, and allow for a more holistic and personalized solution to patient care and treatment.

Dr. Shamir’s lab has demonstrated the usefulness of integrated analysis through the development of algorithms, called Nemo and Domino, to detect similarities between cancers and detect crucial areas of active genes. There is also a focus on identifying driver genes specific to an individual, based on their personalized gene expression and mutation profiles—using an algorithm called Prodigy—with the hope of determining personalized treatment. A final aim of the research happening in Dr. Shamir’s lab is to be able to predict the risk a person has of developing cancer based on information gathered during routine checkups. 

COSI Recaps:

EvolCompGen COSI
It has been an exciting first day for Evolution and Comparative Genomics (EvolCompGen) COSI. We had the opportunity to listen to 13 talks covering a wide variety of subjects ranging from innovative phylogenetic reconstruction methods using supervised learning, likelihood-based co-estimation methods, LASSO-based methods for selecting appropriate sites in alignments, to innovative applications of phylogenetic trees for detecting somatic Single-nucleotide variants, inferring the evolution of cancer tumors, extending our knowledge on the evolution of pathogenic Liberibacter species, methods to trace fungal and fern trees, the evolution of the CRISPR-Cas systems, and reproducible workflows for phylogeny. Keep the discussions going by joining us on Slack and Twitter: bit.ly/join_evolcompgen and @EvolComp. Check out our posters on Juno and leave comments for the presenters too.
 
These talks are now available on ISMB On-Demand.
 

Don't forget to visit our exhibitors!

Start your final day off right at ISMB 2022.  Grab some coffee, meet the exhibitors and get ready to learn and discover. 
 

Feeling the ISCB Travel Mug FOMO?

Not to worry - Mugs for sale at the ISCB Exhibit Booth, Grand Terrace. 

$20/per mug
Cash only

First come, first serve!
 

Tips & Tricks:

If you are a speaker or poster presenter please be sure to review details here: https://www.iscb.org/ismb2022-general/presenter-information#join

To all virtual attendees: we all need a break and caffeine fix.  When a session ends, take a breather, but please remember to join a new session from the schedule!

Slides not changing? Refresh or try a different browser.

Unable to screen share while virtually presenting?  Security upgrades can prevent screen sharing for unregistered apps - try adding the web browser to the list of permitted apps.

Updates happen -  for best experience, please re login to browser at the start of every day and session!

If you are unnable to connect, log out and login with a magic link (not password).

For the best virtual experience at ISMB 2022 we recommend using the latest version of Chrome (https://www.google.com/chrome/).

As a reminder masks are required for in-person attendance at ISMB 2022 as outlined at: https://www.iscb.org/ismb2022-general/health-and-safety

 
Thursday, July 14: Highlights & Reminders


8:15AM - 8:30AM:  Morning Welcome 
8:30AM - 9:30AM:  ISCB Innovator Award Keynote: Núria López-BigasComprehensive identification of cancer driver mutations
9:30AM - 10:15AM:  Caffeinate and Connect with exhibitors (Grand Terrace)
10:15AM - 12:15PM: Morning Sessions: RegSys COSIMLCSB COSIBOSC COSI3DSIG COSIMICROBIOME COSIEvolution and Comparative Genomics COSISpecial Session: COVID-19Bio-Ontologies COSI
12:15PM - 1:15PM:  Lunch and Ideation Hall (Posters on Display) Room: Exhibit Hall A (Level 1)
12:15PM - 1:15PM:  Protein Codeathon: Closing Project Discussions, Publication Timelines, and Suggestions
12:30PM - 2:00PM: Career Fair (Grand Terrace)
1:15PM - 3:15PM:   RegSys COSIMLCSB COSIBOSC/Bio-Ontologies joint session3DSIG COSIMICROBIOME COSIEvolution and Comparative Genomics COSIEquity-focused Research Track
3:15PM - 3:45PM:  Refreshment Break
3:45PM - 4:45PM:  Sessions Continue
4:50PM - 5:15PM: Awards Presentations & Conference Closing Room: Madison CD

 

Thank you to our generous sponsors!

 
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ISMB 2022

Day 5, And that's a wrap!

Day 5: Highlights & Recap!


And that's a wrap - 700+ Posters - 400+ Talks - 10 Tracks all on a hybrid platform! The final day took off with an engaging keynote presentation by ISCB's Innovator Award winner and ended with a plethora of dynamic talks and presentations. Again, a huge thank you to all who made this conference such a successful hybrid event, bumps and all. 

Please read on for more on our final day and what sets ISMB apart!

Highlights



The final keynote address of the ISMB 2022 conference was from Dr. Nuria Lopez-Bigas, the ISCB Innovator Award winner, whose research focuses on the identification of cancer driver mutations. Tumor development follows variation and selection of Darwinian evolution. To find cancer drivers, Dr. Lopez-Bigas is working on identifying signals of positive selection as this is an effective way of uncovering cancer drivers. Signals of positive selection include genes that have mutated more frequently than background mutation rates, genes with a significant regional clustering of mutations, and genes with a bias toward high functional mutations.

The Lopez-Bigas research team is also working on a compendium of mutational drivers which aims to identify as yet unknown cancer driver genes. In addition, they’ve created BoostDM, inspired by evolutionary biology, which uses machine learning to uncover feature combinations that define driver mutations in each gene and tumor type. The findings have been integrated into the Cancer Genome Interpreter and the hope is to personalize cancer medicine and subsequent treatment, as well as to empower patients to better understand their data, and make them aware that their data has value and that in sharing it, they’re helping not only themselves but the research community and, more importantly, other
cancer patients.

COSI Recaps:

Bio-Ontologies COSI
This year’s ISMB marked the 25th year of the Bio-Ontologies COSI, which makes it the longest running COSI at ISMB. To celebrate, we featured outstanding keynotes from Dr. Maria Keet and Dr. Melissa Haendel, the latter of which took place during a shared session with the Bioinformatics Open Source Conference (BOSC) community. The COSI featured 18 paper (2 proceedings papers) and poster presentations and featured research on a wide range of topics including the detection and prevention of bias encoding in ontology development, evaluation of named entity recognition systems and automated solutions to identifying inconsistencies in ontology annotations, improved integration of clinical data and
biomedical ontologies to facilitate rare disease research, strategies to improve ontology FAIRness, new deep learning methods to improve and enhance ontology axioms, and we even saw the introduction of several new ontologies in the domains of cognitive-behavioral symptomatology, Sickle Cell Disease, and Rice Trait concepts.

BioVis COSI
BioVis 2022 started with a keynote by Tatiana von Landesberger (University of Cologne, Germany) on the very timely topic of visual analytics approaches for pandemic data. This included efforts on containing the ‘silent pandemic’ of antibiotic resistant pathogens and of course the ongoing COVID-19 pandemic, as well as reflections and lessons learned. The keynote was followed by one long abstract talk and four short ones. The talks in this session focused on single-cell data analysis and clustering approaches. In the lunch break, the posters were presented, leading to many lively discussions. The second session featured more abstract talks, ranging from metagenomic profile visualization to cohort analysis and the visual analysis of tumor phylogenies. The closing session featured another long abstract talk as well as lightning talks by all poster presenters and a keynote talk by Lennart Martens (Ghent University, Belgium), who shared his research and insights on new perspectives on proteomics through machine learning, especially on post-translational modifications of proteins and the visualization challenges that come with this. Overall, more than two thirds of the talks were given live from the venue. We had a very active participation not only by the on-site attendees but also from the online participants.

EvolCompGen
We enjoyed another full day of fantastic presentations and posters from researchers around the world on subjects as diverse as protein domain architecture evolution, conserved transcripts clusters databases, statistical models for protein alignment, comparative genomics applied to brain tumors, learning genetic features associated with types of diseases and infections driven by pathogens, selection mechanisms underlying convergent traits, or the use of evolution and machine learning to identify multiscale molecular features of antibiotic resistance. The afternoon track ended with a panel discussion where in-person and virtual attendees exchanged ideas on fundamental questions related to gene/synteny/domain/isoform evolution and large-scale phylogenetics. We thank all in-person and virtual attendees for their patience and participation as we conclude our 2022 EvolCompGen program! Stay tuned for announcements on the (non-proceedings) talk and poster winners. We also welcome you to join our COSI community and the 2023 ISMB EvolCompGen planning/organizing committee via Twitter: @EvolComp, Web: evolcompgen.org, or Slack: bit.ly/join_evolcompgen.

We look forward to seeing you in 2023!

Special Sessions:

COVID-19

The special session on COVID-19 research brought us some truly unique findings! First was the unexpected discovery from the Host Genetic Initiative that the 3p21.31 locus has been found to be associated with severity of and complications associated with COVID-19. HGI also hopes that by working together as a community we can uncover more real-time, reliable results and give us a better picture of what is happening with the spread of COVID-19 and its infection profile.

Next was the investigation by Cyclica Canada into off-target drug repurposing who found a rational drug-centric coronavirus repurposing candidate, capmatinib, which showed efficacy against multiple coronaviruses. The explanation for which was that its antiviral activity is not driven by its primary target.

Finally, we heard about the discoveries from the open science Serratus team, who are hoping to be able to predict and prevent another pandemic. The team analyzed 5.7 million sequencing libraries (in 11 days!), and have discovered 9 new species of coronavirus, all in aquatic organisms. The project has helped to show the importance of reanalyzing data, especially since we can now access global levels of data. Reanalysis will help us to create meaningful knowledge from older data that we can distil down to human wisdom that can have large impacts on human response to viruses like COVID-19. Serratus exemplifies what it means to be at the cutting edge of computational virology, and hopes that computational virologists continue to be drivers to COVID-19 research.

Equity-Focused Research
During the Equity-Focused research presentations, we first heard a discussion on race versus genetics in clinical decision-making, reporting that non-white populations are heavily underrepresented in UK Biobanks. In addition to requiring greater ethnic representation in the UK Biobank, there was a clear message that we need to let genetics talk to us instead of making assumptions based on how we as researchers define someone else’s race.

There was also a discussion of how some genome editing tools may be qualified as non-stochastic, which can be problematic. Specifically, if some genome editing and assessment tools are programmed to target genetic regions that are much more common in some populations over others, conclusions about health, treatment, and potential outcomes may be harmfully incorrect.
            
A third talk during the equity session presented the idea that in the field of biodiversity genomics, it would be in the best interest of science for there to be a low-cost DNA sequencing  method which would allow people beyond academia to become part of and engage in genomic sequencing, regardless of economic station. The Amazon Biobank, a community-based genetic database, has been offered as a solution to increase access to biodiversity research. The project combines blockchain and smart contract technologies to promote adequate sharing among all those who collect, insert, store, and process genomic data.
           
 Finally was a talk about bias in science journalism. From an analysis of 22, 000 non-research articles published by Nature, two sources of disparity were identified: gender and perceived regional origin of a name. The results uncovered an obvious skew towards quoting and citing males in Nature science journalism-related articles, but the trend is moving toward equal representation more quickly than what is found in academic publishing. With regard to an analysis of name origin, there was a significant over-representation of names with predicted Celtic/English origin and an under-representation of names with a perceived East Asian origin. It is clear that greater representation of both gender and ethnicity is necessary. 
These talks are now available on ISMB On-Demand.
 
2022 Conference Support Fellowships
Each year, conference organizers are committed to providing support to as many eligible applicants as possible. Of the 155 applications received, ISCB was able to grant 47 Awardees up to 50% of their costs associated with conference attendance, both virtually and in-person.   This years group of Fellowships represented 6 continents and 17 countries. 

Conference Support Fellowship consideration is based on membership and accepted work to Conferences.

 
 

Thank you to our generous sponsors!

 
 
See you next year in Lyon, France!
 
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Submit your research to be a part of this dynamic event! 


ISCB-LA SoIbio BioNetMX 2022 is being planned as a dual channel distribution conference, offering both in-person and virtual attendance.  We hope you can join us in at the Universidad Nacional Autónoma de México Campus Juriquilla: Juriquilla, Querétaro, MX.  If not, consider joining virtual in the conference robust platform.

Featured Topic Areas at ISCB-LA SoIBio BioNetMX 2022:

  • Biomedical Omics
  • Bioinformatics of Microbes and Microbiomes
  • Evolutionary, Comparative and Population Genomics
  • Macromolecular Sequence, Structure, and Function
  • Genome Sequence Analysis
  • Systems Biology and Networks
  • General Bioinformatics/Computational Biology
 

Open Calls for Submissions:

Proceedings/Papers Submissions - 12 August, 2022
Abstract Submission (oral consideration) - 14 September, 2022
Poster Submissions (in-person and online) - 30 September, 2022
 

Call for Paper Submissions

The Bioinformatics Advances Journal has committed to considering publication of a special issue for peer-reviewed articles from the conference.

Deadline: 12 August, 2022

Paper Submissions
 

Abstract Talk and Poster Submissions

ISCB-Latin America SoIBio BioNetMX 2022 invites abstracts topical to bioinformatics and computational biology for consideration for abstract talk and/or poster presentation.

Abstract Deadline: 14 September, 2022
Poster Deadline: 30 September, 2022

Abstract Submissions
Poster Submissions
 
Conference Information
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ISCB Announces Results of the
2022 Leadership Elections

 
The Board of Directors of the International Society for Computational Biology (ISCB) is pleased to announce the results of the recent leadership elections.

Members of the society elected to join the current Officers beginning January 2023 are:
President-elect
Predrag Radivojac

Vice President
Russell Schwartz
 

Current ISCB Officers:
Christine Orengo, Alex Bateman, Nicola Mulder, Michelle Brazas, Janet Kelso, Yana Bromberg


 
 
For additional information on ISCB's annual leadership nominations and elections procedures, please see https://www.iscb.org/leadership-nominations-and-elections.

The next call for nominations of directors and officers will open February 2023, for terms beginning January 2024. 
 
 
 
Join us for the 14th ISCB Conference on Regulatory & Systems Genomics with DREAM Challenges

RSGDREAM 2022 will be a dual channel distribution conference, offering both in-person and virtual attendance.  We hope you join us at the Flamingo Las Vegas Hotel & Casino in Las Vegas, Nevada, USA.  If you are enable, we hope you consider joining virtually on the conference's robust platform.  Register today to attend.

Register to Attend
 
Open Calls for Submissions
Oral Abstract & Poster Submission Deadline:  14 September, 2022
Submit your research today to be a part of this dynamic program.  

Featured Topic Areas for RSGDREAM 2022 include:

  • Network visualization and analysis
  • Regulatory motifs and modules
  • Epigenomics and chromatin state
  • Non-coding RNAs
  • Regulatory networks
  • Co-transcriptional, post-transcriptional, and translational regulation
  • Signal transduction networks
  • Genetic, molecular, and phenotypic variation and human disease
  • Cellular signatures of biological responses and disease states
  • Mathematical modeling and simulation of biological systems
  • Methods for systematic validation of high-throughput biological predictions
  • Single-cell transcriptomics
  • Single-cell proteomics
  • Metabolomics
  • Microbiome
  • Machine learning methods for systems biology
  • Translational systems biology
Oral Abstract & Poster Submissions
DREAM Challenges Submissions
 
Exciting Keynote Line-up
Keynote Speakers
 
Conference Information
 
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Submit your research to the GIW XXX/ISCB-Asia V Conference:
 
Open Calls for Submissions
Call for Papers Deadline:  19 August, 2022

This call is for original research.  Submitted manuscripts will be peer-reviewed for oral presentation at the conference. Any co-author (registered for the conference) can present an accepted submission.  A person may be co-author of multiple submissions, but can only present one of them. 
 
We will also recommend those manuscripts for publication in one of the journals listed below.  Which journal depends on the nature and strength of the manuscript.  Authors are encouraged to let us know their preferences and may opt-out if unhappy with our recommendation.  Publication charges vary by journal and are the responsibility of the authors.

Based on past experience, we expect that most research presented at the conference will be published within a few months of the conference.  But please be aware that journals reserve the right to do further review or even reject recommended manuscripts.

Journals which have agreed to work with us include:

  • Bioinformatics
  • Bioinformatics Advances
  • Journal of Bioinformatics and Computational Biology
  • BMC Bioinformatics
  • GigaScience
Paper Submission
 
Invited Speakers
        
Invited Speakers
 
Conference Information
Conference Key Dates
 
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Registration is Open - Join us today for this hybrid event!

ISCB-LA SoIbio BioNetMX 2022 is being planned as a dual channel distribution conference, offering both in-person and virtual attendance.  We hope you can join us at the Universidad Nacional Autónoma de México Campus Juriquilla: Juriquilla, Querétaro, MX.  If not, consider joining virtual in the conference robust platform.

Important Registration Dates:
 
Early Discounted Registration: September 26, 2022
Regular Registration: October 24, 2022
On-site (Late Registration): November 3 – 7, 2022
Register to Attend
 

Abstract Talk and Poster Submissions

ISCB-Latin America SoIBio BioNetMX 2022 invites abstracts topical to bioinformatics and computational biology for consideration for abstract talk and/or poster presentation.

Featured Topic Areas at ISCB-LA SoIBio BioNetMX 2022:

  • Biomedical Omics
  • Bioinformatics of Microbes and Microbiomes
  • Evolutionary, Comparative and Population Genomics
  • Macromolecular Sequence, Structure, and Function
  • Genome Sequence Analysis
  • Systems Biology and Networks
  • General Bioinformatics/Computational Biology

Abstract Deadline: 14 September, 2022
Poster Deadline: 30 September, 2022

Abstract Submissions
Poster Submissions
 
Conference Information
Twitter
Facebook
Website
 
 
 
 
 
 
Join us for the 14th ISCB Conference on Regulatory & Systems Genomics with DREAM Challenges

RSGDREAM 2022, a dual channel distribution conference, offering both in-person and virtual attendance is heading to the Flamingo Las Vegas Hotel & Casino in Las Vegas, Nevada, USA.  If you are able, we hope you consider joining virtually on the conference's robust platform.  Register today to attend.

Register to Attend
 
Open Calls for Submissions
Oral Abstract & Poster Submission Deadline:  14 September, 2022
Submit your research today to be a part of this dynamic program.  

Featured Topic Areas for RSGDREAM 2022 include:

  • Network visualization and analysis
  • Regulatory motifs and modules
  • Epigenomics and chromatin state
  • Non-coding RNAs
  • Regulatory networks
  • Co-transcriptional, post-transcriptional, and translational regulation
  • Signal transduction networks
  • Genetic, molecular, and phenotypic variation and human disease
  • Cellular signatures of biological responses and disease states
  • Mathematical modeling and simulation of biological systems
  • Methods for systematic validation of high-throughput biological predictions
  • Single-cell transcriptomics
  • Single-cell proteomics
  • Metabolomics
  • Microbiome
  • Machine learning methods for systems biology
  • Translational systems biology
Oral Abstract & Poster Submissions
DREAM Challenges Submissions
 
Exciting Keynote Line-up
Keynote Speakers
 
Conference Information
 
Twitter
Facebook
Website