Leading Professional Society for Computational Biology and Bioinformatics
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ISCB News and Announcements

  • Applied Statistical Modelling and Health Informatics PG Cert, King’s College London
ISMB 2020
Tuesday, July 14
ISMB 2020 - July 13 - 16, 2020
 
ISCB Election - Polls are Open!  Vote Now
 

Today @ ISMB 2020

Let your curiosity take over, discover the latest research in the field and get ready to connect, collaborate, and engage!

Accessing Talks
To access any session of your choice, please go to "Watch Now" and select the Channel for that specific Track.

Cafe Connect
Connect with your COSI for networking opportunities. Click on your COSI image to access networking rooms. If you want to just grab a room with a friend, go to Cafe Connect Open Table.
 
 
Highlights & Reminders
 
07:45 AM Posters available for viewing
   
09:30 AM ISMB Distinguished Keynote: Xiaole Shirley Liu
   
10:40 AM COSI Track Presentations:
CAMDA, Function / CAFA, iRNA, MLCSB, Education, EvolCompGen, SysMod
   
10:40 AM Special Track:
NIH/OD Office of Data Science Strategy
   
10:40 AM Special Sessions
SST03: Bioinformatics of Corals
   
01:15 PM Lunch & Learn:
F1000 Research – Innovative Open Access publishing for software tools & beyond
   
02:00 PM Special Sessions
SST04: SCANGEN: Single-cell cancer genomics
SST05: HuBMAP: Integrating genomics, imaging and mass-spectrometry to construct single-cell human tissue maps
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Thank you to our sponsors!
 
Silver Sponsors
 
NIH Office of Data Science Strategy (ODSS) Harvard Medical School - The Department of Biomedical Informatics (DBMI) in the Blavatnik Institute
 
Copper Sponsors
Janssen Immunology Great Lakes Bioinformatics (GLBIO) conference
   
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Conference Exhibitors
 

The International Society for Computational Biology

ISCB Student Council GOBLET, the Global Organisation for Bioinformatics Learning, Education and Training
 
NIH Office of Data Science Strategy (ODSS)
     
 
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Montréal food

We know you are missing the regional cuisine of the Quebec province of Canada and Montreal. Join us in celebrating Montreal cuisine by showing us your own dish inspired by favorite dishes that will change daily.



Post your photos on social media using these hashtags #ISMB2020 and #ISMB2020virtualeats and tag @iscb and @meetmontreal for each day’s challenge!

https://www.mtl.org/en/experience/sugaring-around-montreal
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Exploring Montréal from Home

It’s sad that we cannot be gathered together in Montreal to experience the city, our science, and see our friends and colleagues. To help ease the pain, Tourisme Montréal has compiled a list of some of the best online activities, including virtual city tours, music, games and more which feature the city. ISMB will be going back to Montreal in 2024 but until then, enjoy these activities.
 

 
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ISMB 2020
 
Day 1, July 13, 2020 Highlights & Recap
ISMB 2020 - July 13 - 16, 2020
Day 1: Highlights & Recap
 
We are off to a good start! A huge thank you to everyone for joining ISMB 2020 from all over the world. Today was a full day of innovation, stellar science and amazing opportunities.

Tech Improvement

And of course, a stellar day could not be complete without a few hiccups so thank you for hanging in there with us as we worked through the technical issued that occurred. THANK YOU FOR YOUR UNDERSTANDING AND PATIENCE! Below please take note of our "cheat sheet section" with some helpful hints to navigate the smaller technical problems that arose today and hopefully provide a smoother tomorrow.

Highlights

ISMB 2020 opened with a bang. The conference opening keynote was Elaine Mardis who gave an engaging and enthusiastic keynote address on Computational Analysis in Pediatric Cancer Precision Medicine.

The day then dove right into the new and exciting world of a virtual conference with a vast array of sessions, tracks and channels.

ISCB Town Hall

ISMB marked the largest attended ISCB Town Hall in its history with over 250 attendees joining to hear about the state of ISCB which is strong even in the face of these unprecedented times.
 
Congratulations to all the ISCB Award & Competition Winners:
 
ISCB Student Software Award Winner
Florian Schmidt

TEPIC

ISCB Student Software Prospective Future Impact Award Winner
Robert Ietswaart
GeneWalk

ISCB Art in Science
Dr. Zdenko Herceg, Art of Epigenetics
Mr. Joshua Bugbee, Impact
Dr. Marwan Abdellah, Brain Vasculature

2020 Wikipedia Winners
Diego Mariano, Structural Bioinformatics
Tiago Lubiana, OBO Foucndry & List of OBO Foundry Ontologies
Darko Durovski, Transcriptomics
 
 
Green ISCB: ISCB Groves

ISCB, in partnership with All Things Small and Green and Trees for Life, has set up its first grove of native trees, the ISCB 2020 grove, to offset carbon emissions caused by ISCB activities such as those emitted during the conferences, workshop or panel meetings that it organizes. With this grove, ISCB members are also offered a simple and convenient way to offset their own carbon emissions such as those incurred during traveling to ISCB conferences or workshops. We welcome you to join us as we work towards healing our environment.
 
Equity, Diversity & Inclusion Strategic Plan Announced

ISCB Equity, Diversity & Inclusion Committee develops ISCB first strategic plan related equity, diversity and Inclusion. The elements of the plan are:

1. Increasing social accountability for change in the Society
2. Obtaining data and developing measures to assess progress
3. Voluntary training: The “ISCB Awareness toolkit”
4. Recruitment initiative
5. Mentoring

More information will be posted to a special section of the ISCB website soon.
 
ISCB Equity, Diversity & Inclusion Survey

To update your member profile and complete the ISCB EDI survey, please follow the following steps:

1. Click on the My ISCB tab once you have signed into the ISCB website
2. Click on "edit" then immediately "update your profile" button above your profile image
3. Choose the Membership Record tab from the Edit Your Details section
4. Scroll down and update the ethnicity section making sure to click the blue Update section when finished.
 
Cheat-Sheet Section

To access any session of your choice, please go to "Watch Now" and select the Channel for that specific Track. When in doubt, always refresh (F5)!

Miss a session? Not to worry!
Session will be available for on demand viewing as well.
 
Cast Your Ballot!
. ISCB Election - Polls are Open!  Vote Now
 
See you all tomorrow for another exciting, engaging and technically smooth day!

     

ISMB 2020 - July 13 - 16, 2020
 
ISCB Election - Polls are Open!  Vote Now
 

Welcome to ISMB 2020!

Let your curiosity take over, discover the latest research in the field and get ready to connect, collaborate, and engage!

Log in to the conference platform and build your attendee profile at:
https://iscb-ismb20.myconferencenow.com/login/ and navigate ISMB 2020 like a pro!
 
Monday, July 13: Highlights & Reminders
 
07:45 AM Posters available for viewing
   
09:30 AM ISMB Distinguished Keynote: Elaine Mardis
   
10:40 AM COSI Track Presentations:
CAMDA, Function / CAFA, iRNA, MLCSB, SysMod, Text Mining, BioInfo Core
   
10:40 AM Technology Track Presentations:
The GenePattern Notebook Environment
Expression Atlas: A platform for integrating and displaying expression data from tissues to single cells
HiSCiAp: User-friendly, scalable tools and workflows for single-cell analysis
   
10:40 AM Special Sessions
SST01: Systems Immunology: Computational approaches for understanding human immune system and immune-related diseases
   
01:00 PM ISCB Town Hall
   
02:00 PM WEB 2020
   
02:00 PM Special Sessions
SST02: Bioinformatics outside the lab: How to mobilize online citizen scientists to accelerate research
SST01 continues
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Thank you to our sponsors!
 
Silver Sponsors
 
 
Copper Sponsors
   
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Montréal food

We know you are missing the regional cuisine of the Quebec province of Canada and Montreal. Join us in celebrating Montreal cuisine by showing us your own dish inspired by favorite dishes that will change daily.



Post your photos on social media using these hashtags #ISMB2020 and #ISMB2020virtualeats and tag @iscb and @meetmontreal for each day’s challenge!

https://www.mtl.org/en/experience/the-famous-montreal-bagel

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Exploring Montréal from Home

It’s sad that we cannot be gathered together in Montreal to experience the city, our science, and see our friends and colleagues. To help ease the pain, Tourisme Montréal has compiled a list of some of the best online activities, including virtual city tours, music, games and more which feature the city. ISMB will be going back to Montreal in 2024 but until then, enjoy these activities.
 

 

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ISMB 2020
HURRY! Register Online Today
ISMB 2020 - July 13 - 16, 2020

Acquire new knowledge, new tools, new contacts... Register today and experience the endless possibilities of virtual ISMB 2020!

Choose from ISCB COSI Tracks, posters, and keynotes representing a multidisciplinary forum for the dissemination of the latest developments in computational biology/bioinformatics.
-Explore the Program-

Online Registration Deadline: TODAY July 9, 2020
Conference will be conducted in the Eastern Daylight Time Zone
(convert schedule to your time zone here)
 
Register To Attend
 

Book Your Tutorial Spot!
Tutorial Registration Deadline: TODAY July 9, 2020 9 AM Eastern

ISMB 2020 Register for Online Workshop and Tutorial Program
Tutorial Registration

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 ISCBacademy Webinar Series
 
Mark your calendars for TOMORROW, the 7th of July!
 
Please use the link below to find more information or to register for:
 

July 07, 2020 at 11:00AM EDT, Genetic Basis Of De Novo Appearance Of Carotenoid Ornamentation In Bare-Parts Of Canaries  by Malgorzata Gazda, hosted by EvolCompGen COSI and SMBE.

Unlike wild and domestic canaries (Serinus canaria), or any of the three dozen species of finches in genus Serinus, the domestic urucum breed of canaries exhibits bright red bills and legs. This novel trait offers a unique opportunity to understand the mechanisms of bare-part coloration in birds. To identify the mutation producing the colorful phenotype, we resequenced the genome of urucum canaries and performed a range of analyses to search for genotype-to-phenotype associations across the genome. We identified a nonsynonymous mutation in the gene BCO2 (beta-carotene oxygenase 2, also known as BCDO2), an enzyme involved in the cleavage and breakdown of full-length carotenoids into short apocarotenoids. Protein structural models and in vitro functional assays indicate that the urucum mutation abrogates the carotenoid-cleavage activity of BCO2. Consistent with the predicted loss of carotenoid-cleavage activity, urucum canaries tended to have increased levels of full-length carotenoid pigments in bill tissue and reduced levels of carotenoid-cleavage products (apocarotenoids) in retinal tissue compared with other breeds of canaries. We hypothesize that carotenoid-based bare-part coloration might be readily gained, modified, or lost through simple switches in the enzymatic activity or regulation of BCO2 and this gene may be an important mediator in the evolution of bare-part coloration among bird species.

Register for an ISCB Webinar
 
 
 International Society for Computational Biology
 

Polls are Open!

 
ISCB members have the privilege to nominate and elect members of the ISCB community to hold leadership positions. The 2020 open officer positions are Vice President and Secretary. The polls are now open for you to cast your vote for members who have accepted nominations for these leadership positions. It is your voice as a member of this prestigious organization to elect these officer positions. You are encouraged to take a moment to cast your vote.

Vice President
 
photo - Alex Bateman, Ph.D. photo - Nicola Mulder, Ph.D. photo - Russell Schwartz, Ph.D.
Alex Bateman, Ph.D.
Nicola Mulder, Ph.D. Russell Schwartz, Ph.D.
 
Secretary
 
photo - Michelle Brazas, Ph.D. photo - Lucia Peixoto, Ph.D.
Michelle Brazas, Ph.D. Lucia Peixoto, Ph.D.
 
Cast your ballot for these important leadership positions
 
*ISCB members in good standing receive one vote for each open position. To access the ballot, log into My ISCB and click on the link provided in this email or the ISCB Election link in the left-hand menu.
 
 ISCBacademy Webinar Series
 
Mark your calendars for TOMORROW, the 30th of June!
 
Please use the link below to find more information or to register for:
 

June 30, 2020 at 11:00AM EDT, Global surveillance of COVID-19 by mining news media using a multi-source dynamic embedded topic model by David Buckeridge, an ISCB COVID-19 Webinar

As the COVID-19 pandemic continues to unfold, understanding the global impact of non-pharmacological interventions (NPI) is important for formulating effective intervention strategies, particularly as many countries prepare for future waves. We used a machine learning approach to distill latent topics related to NPI from large-scale international news media. We hypothesize that these topics are informative about the timing and nature of implemented NPI, dependent on the source of the information (e.g., local news versus official government announcements) and the target countries. Given a set of latent topics associated with NPI (e.g., self-quarantine, social distancing, online education, etc), we assume that countries and media sources have different prior distributions over these topics, which are sampled to generate the news articles. To model the source-specific topic priors, we developed a semi-supervised, multi-source, dynamic, embedded topic model. Our model is able to simultaneously infer latent topics and learn a linear classifier to predict NPI labels using the topic mixtures as input for each news article. To learn these models, we developed an efficient end-to-end amortized variational inference algorithm. We applied our models to news data collected and labelled by the World Health Organization (WHO) and the Global Public Health Intelligence Network (GPHIN). Through comprehensive experiments, we observed superior topic quality and intervention prediction accuracy, compared to the baseline embedded topic models, which ignore information on media source and intervention labels. The inferred latent topics reveal distinct policies and media framing in different countries and media sources, and also characterize reaction COVID-19 and NPI in a semantically meaningful manner.

Register for an ISCB Webinar
 
 

 

ISCB Buzz: ISCB Buzz: Important News, Events & Announcements!
 

ISMB 2020 - July 13 - 16, 2020

 
Virtual ISMB 2020 Workshop and Tutorial Program
 
ISMB 2020 Tutorial Registration
 
ISMB 2020 Conference Registration
 
View Conference Program
 
Become an ISCB Member and Save on Registration
 
 ISCBacademy Webinar Series
 
Mark your calendars for the next Webinar!

June 30, 2020 at 11:00AM EDT, Global surveillance of COVID-19 by mining news media using a multi-source dynamic embedded topic model by David Buckeridge, an ISCB COVID-19 Webinar
 
As the COVID-19 pandemic continues to unfold, understanding the global impact of non-pharmacological interventions (NPI) is important for formulating effective intervention strategies, particularly as many countries prepare for future waves. We used a machine learning approach to distill latent topics related to NPI from large-scale international news media. We hypothesize that these topics are informative about the timing and nature of implemented NPI, dependent on the source of the information (e.g., local news versus official government announcements) and the target countries. Given a set of latent topics associated with NPI (e.g., self-quarantine, social distancing, online education, etc), we assume that countries and media sources have different prior distributions over these topics, which are sampled to generate the news articles. To model the source-specific topic priors, we developed a semi-supervised, multi-source, dynamic, embedded topic model. Our model is able to simultaneously infer latent topics and learn a linear classifier to predict NPI labels using the topic mixtures as input for each news article. To learn these models, we developed an efficient end-to-end amortized variational inference algorithm. We applied our models to news data collected and labelled by the World Health Organization (WHO) and the Global Public Health Intelligence Network (GPHIN). Through comprehensive experiments, we observed superior topic quality and intervention prediction accuracy, compared to the baseline embedded topic models, which ignore information on media source and intervention labels. The inferred latent topics reveal distinct policies and media framing in different countries and media sources, and also characterize reaction COVID-19 and NPI in a semantically meaningful manner.
Let us know how the COVID-19 Pandemic is impacting you
As we consider how we can best serve and support the bioinformatics and computational biology research community during the COVID-19 pandemic and beyond, we’d like to hear from you about how current circumstances are affecting your ability and/or desire to participate in face-to-face events, and what might be helpful alternatives to such programs. Please take ~5 minutes to take our community assessment survey. Your feedback will help guide our strategic discussions.
 
Take the Survey
Register Today for the Hackathon@ISMB 2020
With the COVID-19 pandemic, we realized that some of the capabilities for sharing structures and structural analyses with peers, in preprints through URLs could be a valuable mechanism to enable collaborative research between scientists. We are racing to add functionality to broaden analytical capabilities to analyze membrane proteins, cell surface proteins, and to bridge the worlds of sequencing, structure, and function. We also need to make structural information accessible to scientists with little knowledge in structure. The software has integrated the visualization of sequence (1D) and structure (3D) and started on 2D, initially at the ISMB 2016 hackathon. We propose to prototype new functionality on that same hackathon model, this time online at ISMB2020. To register for the hackathon, please complete this application form. Applications are due 11 July 2020 by 4pm EDT.
 
Bioinformatics Workshop Fiesta 2020/21
BWF is a joint effort that aims to grow bioinformatics skills and competencies in the community. The series offers a plethora of 16 workshops of choice, with a proposed pathway. We invite all passionate educators to join us as instructors for BWF 2020/21 workshops (www.ambis.org.sg/bwf-2020), which will be held virtually (online) from August 2020 to June 2021. Register your interest here:
https://bit.ly/bwfinstructor
 
ISCB COVID-19 Section - Call for Submissions
If you are a member of ISCB we encourage you to submit entries to the Science collection and Tutorial collection. Your submission entails a pointer to the science content, a short description of background or purpose (two lines) and lists your name as submitter. Submission will be subjected to a basic check of scope and purpose.
ISCB COVID-19 Section
ECCB 2020 Goes Virtual
ECCB 2020 Goes Virtual
The ECCB2020 Organising Committee has been closely monitoring the COVID-19 situation globally and its impact on the conference. As the situation continues to change rapidly, our top priority remains to ensure the health and safety of all the ECCB2020 participants. This is the reason that leads us to announce that ECCB in its traditional format will be postponed to 2022 and a fully virtual edition for ECCB2020 will be organized. This virtual edition - the first one in 19th editions - will be structurally simpler to facilitate attendees' interactions while keeping the spirit of the ECCB series.
 
Call for Papers: Publish your software tools in the ISCB Community Journal
Call for Papers: Publish your software tools in the
ISCB Community Journal
Did you know you can publish an article describing new software tools you have created? Software tool articles cover all aspects of your software, from details of the code used and examples of data inputs, to tips for other researchers on maximizing the tool’s potential. Benefit from proper code syntax highlighting, interactive figures, Code Ocean capsules, and indexing through Scopus and PubMed to increase the visibility of your research. Find out more here and submit today to the ISCB Community Journal on F1000Research.
ISCB Art in Science Award - Final Call
As part of the virtual ISMB 2020, the ISCB Art in Science Competition is a way to show the beauty of science in art form, especially topics related to Computational and Molecular Biology. All interested members may submit images that have been generated as part of a research project and other creative efforts that involve scientific concepts or employ scientific tools and methods. Find the beauty of science through art! - Submit your artwork.
Don't Miss! Important Deadlines below!
ISCB-LA SoIBio BioNetMX 2020 | Oct 25 – 30, 2020 | Querétaro, Querétaro, Mexic Abstracts deadline: August 24, 2020
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ISCBacademy Webinar Series June 30, 2020 at 11:00AM EDT, Global surveillance of COVID-19 by mining news media using a multi-source dynamic embedded topic model by David Buckeridge, an ISCB COVID-19 Webinar
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YRSG with DREAM 2020 | November 16-18, 2020 SAVE THE DATE!
November 16 - 18, 2020
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ROCKY 2020 | Dec 3 – 5, 2020 SAVE THE DATE!
December 03 - 05, 2020
ISCB Career Center
ISCB Career Center – the place to post a job, search for a job, or upload your CV. Job posting and CV upload is complimentary for members. Nonmember may also participate for a nominal fee.
     
ISCB Career Center - Post a Job ISCB Career Center - Find a Job
     
 
 
Members Corner
 
Invest in you, your research field - Become an ISCB Member Today!
 
     
Support ISCB!

Giving back never felt so good - Donate Now to the Anna Tramontano Fund to help support the next generation of computational biologists!

 

ISCB Membership

Expand Your Knowledge, ISCB Members enjoy of complimentary access to ISCBacademy. Don't miss these benefits & more!

Donate Now
 
Membership Details
     
Senior Member Designation

The senior member designation is attained by members who are one decade post degree and who have demonstrated sustained contributions to the field of computational biology or to ISCB.
  Support ISCB!

AmazonSmile is a simple and automatic way for you to support ISCB every time you shop, at no cost to you. Shop on amazon.com with the added bonus that Amazon will donate a portion of the price to ISCB!


Senior Members!
 
AmazonSmile
     
     
 

ISMB 2020 - July 13 - 16, 2020
 
ISMB 2020 Register for Online Workshop and Tutorial Program
ISMB 2020 will hold a series of online workshops and tutorials prior to the start of the ISMB 2020 virtual conference scientific program. Don't miss your chance to attend these programs. Register early as space is limited.

More details here
 
TUTORIALS REGISTRATION
 
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 ISMB 2020  July 13 - 16, 2020Join us for the

ISMB 2020 Virtual Conference

Registration is now open at:

https://www.iscb.org/cms_addon/registration_conference/ismb2020virtual

 
REGISTER TO ATTEND
 
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 ISCBacademy Webinar Series
 
Mark your calendars for Friday, the 26 of June!
 
Please use the link below to find more information or to register for:
 

June 26, 2020 at 11:00AM EDT, At Home with Covid-19
by Brian Shoichet, an ISCB COVID-19 Webinar

The urgency of the coronavirus pandemic has motivated investigators world wide to seek approved drugs or investigation new drugs as a way to rapidly advance therapeutics into clinical trials to treat the disease. I will describe a large collaboration, hosted by the UCSF Quantitative Biology Institute, to do that in a mechanistically focused way. Using AP-MS, a host-pathogen network of viral and human proteins was created, and drugs were sought targeting the human partner. From among 322 high confidence human proteins associated with 26 viral proteins emerged 63 that were druggable. Against those, 69 drugs were tested for efficacy, and from these 10 drugs in two broad classes emerged: those targeting protein biogenesis, and those acting against the Sigma1 and Sigma2 receptors. The activities of these drugs, and the chemoinformatics infrastructure that supported their selection, will be discussed. The mechanism-based repurposing strategy will be compared to a complementary effort that targets viral proteins and seeks novel chemical matter, using structure-based ultra-large library docking.

*Access to the webinar series is complimentary for ISCB members. Nonmembers can join for a fee.

Register for an ISCB Webinar