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

 ISCBacademy Webinar Series
 
Register today for the next hands-on tutorial:
 

November 19, 2021 at 11:00 UTC - Elements of Style in Reproducible Workflow Creation and Maintenance: A Hands-on Tutorial by Anne Deslattes Mays and Christina Chatzipantsiou - Hosted by ISCB

In this short 3 hour course, we will introduce the learner to certain elements of style in the construction and containerization of small single-function processes that facilitate reproducible workflow creation and execution. We will show how these processes may be kept up-to-date and alert the creator to the functional state of these processes (working or failing) by using a feature found within GitHub called GitHub Actions. This hands-on-course will use a small example to provide the structure, philosophy and approach to achieving this desirable outcome. This course seeks to demystify and make accessible powerful methods one can use to achieve platform independence and platform interoperability. Using a simple RNASeq pre-baked analysis example to demonstrate these techniques, we will break down and walk the learner through each of the construction steps. The learners will be introduced to Conda, Docker, GitHub and the standard workflow language, Nextflow. If time permits, we will also show how these containerized processes can also be represented in a second standard workflow language implementation (e.g. Common Workflow Language or WDL). By the end of the course, the learner will understand these Elements of Style and will know how Conda, Docker, GitHub, Zenodo, and Nextflow enable reproducible research. Moreover, these steps will be on GitHub for the Learner to return to and reproduce themselves after the end of the course. In taking this course, the Learner will also be shown the power of JupyterLab notebooks to facilitate literate programming. Through their participation in the class, learners will learn and understand FAIR (findability, accessibility, interoperability and reusability) best practices. We ask all participants to get a GitHub, Zenodo and ORCID accounts prior to the course. We ask for minimal background knowledge of the command line, simple commands in the shell environment, we enable a bit of self-learning from the repository to facilitate the acquisition of this knowledge.

GitHub: https://github.com/ISCB-Academy/Elements-of-Style-Reproducible-Workflow-Creation-Maintenance-Tutorial

Mark Your Calendars for these Upcoming COSI Series Webinars:

November 16, 2021 at 1:00 PM EST - Haplotype-aware variant calling with PEPPER-Margin-DeepVariant enables high accuracy in nanopore long-reads by Kishwar Shafin, University of California Santa Cruz - Hosted by HiTSeq

November 23, 2021 at 11:00 AM EST - Robust single-cell discovery of RNA targets of RNA-binding proteins and ribosomes by Kristopher Brannan, University of California at San Diego - Hosted by iRNA and RNA Society

December 9, 2021 at 11:00 AM EST - DeepSTARR predicts enhancer activity from DNA sequence and enables the de novo design of enhancers by Bernardo Almeida, Research Institute of Molecular Pathology - Hosted by MLCSB

To propose a talk for an ISCBacademy Webinar click here.

ISCBacademy is complimentary to ALL ISCB members!  
 
Register today!
 

 

ISMB 2022
Call for Tutorial Proposals

ISMB 2022:  Madison, Wisconsin, July 10-14, 2022

 
  DECEMBER 2021
  13
  TUTORIALS
  ABOUT ISMB
  KEY DATES
  CONFERENCE
CHAIRS
  JOIN ISCB
  ISMB 2022:  Madison, Wisconsin, July 10-14, 2022
  ISMB 2022:  Madison, Wisconsin, July 10-14, 2022


What will the ISMB 2022 conference look like?

We have waited patiently, carefully crafted our return to ensure a safe conference, and now we are ready to welcome you back face to face in 2022! ISMB 2022 will offer both in-person and virtual attendance.  We welcome you to join us in Madison, Wisconsin, July 10-14 or virtually in our state of the art virtual interface.  Your comfort level, your choice.  Continue reading....


 
Call for Tutorial Proposals
Deadline: December 13, 2021

The purpose of the Tutorials program is to build knowledge and provide hands-on training in "cutting-edge" topics relevant to the bioinformatics field and the COSI communities.

Potential topic areas may include but are not limited to the following:

  • Data analysis: single-cell, metagenomics, long read-sequencing data or any other life sciences data
  • AI and Machine Learning for bioinformatics
  • GA4GH tools for data sharing
  • Translational informatics: Opportunities for bioinformatics in the clinical realm
  • How to make your software sustainable and reusable for open access or commercial usage
  • Biological Sciences for Bioinformaticians (eg aimed at Comp-science graduates with less/no prior biology knowledge)
  • Data Science in Genomics
  • Workflow tools (eg Snakemake, NextFlow)
  • Data Visualization for Bioinformatics
  • Bioinformatics on Cloud Platforms
  • Best practices (eg learning github, Python coding standard PEP8 etc)
ISMB 2022


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 International Society for Computational Biology
 
Recognize Achievement - Nominate a Colleague for an ISCB Award
 

Awards Nominations Deadline - 06 December

Submit your nomination for one of these annual awards today.  The program is nomination based and we strong encourage the submission of nominations that are diverse in nature.  Self-nominations accepted.

* ISCB recognizes that career paths may take many forms and that the definition of “early/mid-career” is fluid. ISCB supports researchers taking time off for maternity/paternity, care for a family member, an event of personal disability or other factors. A nominee may qualify for the Overton Prize or Innovator Award even though their actual years since degree is above the set threshold. It is the responsibility of the nominator to indicate any time off taken when submitting the nomination form. ISCB may deduct the equivalent time for the maternity/paternity leave, care for a family member or personal disability from the set award thresholds using guidance established by the European Research Council (page 19, paragraph 5).

The award winners will be announced in Spring 2022.

 
The Overton Prize was established by the ISCB in memory of G. Christian Overton, a major contributor to the field of bioinformatics and a member of the ISCB Board of Directors who died unexpectedly in 2000. The annual prize is awarded for outstanding accomplishment to a scientist in the early to mid-career stage (up to a decade post-degree or equivalent experience*), who has already made a significant contribution to the field of computational biology.
 
ISCB Overton Prize Award
 
 
The Senior Scientist Accomplishment Award is in recognition of outstanding service contributions by any member toward the betterment of ISCB through exemplary leadership, education, service, or a combination of the three.
 
ISCB Accomplishment by a Senior Scientist Award
 
 
The Outstanding Contributions to ISCB Award is given to a leading scientist, 10-20 years post-degree (or equivalent experience*), who consistently makes outstanding contributions to the field of computational biology and continues to forge new directions.
 
 
ISCB Outstanding Contributions to ISCB Award
 
 
The ISCB Innovator Award is given to a leading scientist, 10-20 years post-degree (or equivalent experience*), who consistently makes outstanding contributions to the field of computational biology and continues to forge new directions.
 
ISCB Innovator Award
 

Nominate a Fellow

Fellows Nominations Deadline - 09 December 

The International Society for Computational Biology introduced the ISCB Fellows Program in 2009 to honor members that have distinguished themselves through outstanding contributions to the fields of computational biology and bioinformatics. During the inaugural year of the program, ISCB conferred the Fellow status on the seven winners-to-date of the ISCB Accomplishment by a Senior Scientist Award, and recognized these distinguished scientists during the ISMB/ECCB 2009 conference in Stockholm, Sweden. Since then, ISCB has sought nominations from our community of members, which are reviewed and voted upon by a selection committee. New Fellows are introduced at each year's ISMB conference.

Only members can nominate.

Nominate a Fellow

 

 

 

 

 International Society for Computational Biology
 
Recognize Achievement - Nominate a Colleague for an ISCB Award
 

Awards Nominations Deadline - 06 December

Submit your nomination for one of these annual awards today.  The program is nomination based and we strong encourage the submission of nominations that are diverse in nature.  Self-nominations accepted.

* ISCB recognizes that career paths may take many forms and that the definition of “early/mid-career” is fluid. ISCB supports researchers taking time off for maternity/paternity, care for a family member, an event of personal disability or other factors. A nominee may qualify for the Overton Prize or Innovator Award even though their actual years since degree is above the set threshold. It is the responsibility of the nominator to indicate any time off taken when submitting the nomination form. ISCB may deduct the equivalent time for the maternity/paternity leave, care for a family member or personal disability from the set award thresholds using guidance established by the European Research Council (page 19, paragraph 5).

The award winners will be announced in Spring 2022.

 
The Overton Prize was established by the ISCB in memory of G. Christian Overton, a major contributor to the field of bioinformatics and a member of the ISCB Board of Directors who died unexpectedly in 2000. The annual prize is awarded for outstanding accomplishment to a scientist in the early to mid-career stage (up to a decade post-degree or equivalent experience*), who has already made a significant contribution to the field of computational biology.
 
ISCB Overton Prize Award
 
 
The Senior Scientist Accomplishment Award is in recognition of outstanding service contributions by any member toward the betterment of ISCB through exemplary leadership, education, service, or a combination of the three.
 
ISCB Accomplishment by a Senior Scientist Award
 
 
The Outstanding Contributions to ISCB Award is given to a leading scientist, 10-20 years post-degree (or equivalent experience*), who consistently makes outstanding contributions to the field of computational biology and continues to forge new directions.
 
 
ISCB Outstanding Contributions to ISCB Award
 
 
The ISCB Innovator Award is given to a leading scientist, 10-20 years post-degree (or equivalent experience*), who consistently makes outstanding contributions to the field of computational biology and continues to forge new directions.
 
ISCB Innovator Award
 

Nominate a Fellow

Fellows Nominations Deadline - 09 December 

The International Society for Computational Biology introduced the ISCB Fellows Program in 2009 to honor members that have distinguished themselves through outstanding contributions to the fields of computational biology and bioinformatics. During the inaugural year of the program, ISCB conferred the Fellow status on the seven winners-to-date of the ISCB Accomplishment by a Senior Scientist Award, and recognized these distinguished scientists during the ISMB/ECCB 2009 conference in Stockholm, Sweden. Since then, ISCB has sought nominations from our community of members, which are reviewed and voted upon by a selection committee. New Fellows are introduced at each year's ISMB conference.

Only members can nominate.

Nominate a Fellow

 

 

 

 

2021 ISCB Rocky Mountain Bioinformatics Conference (ROCKY) In-Person
 

Submit your research to be a part of the 2021 ISCB Rocky Mountain Bioinformatics Conference (ROCKY)

 
Abstract Submission Deadline: *October 12, 2021*
Submit your research to be a part of the 2021 ISCB Rocky Mountain Bioinformatics Conference (ROCKY)
 
The Rocky 2021 Conference will provide opportunities for short "flash" presentations (10-minute talks) and poster presentations on current projects from as many attendees as possible. Original presentations (including significant works-in-progress) are solicited in all areas that involve the application of advanced computational methods to significant problems in biology or medicine.
 

Registration is OPEN - Join us IN PERSON for Rocky 2021

Registration is OPEN - Join us IN PERSON for Rocky 2021
Conference Dates:  December 2 - 4, 2021
Viceroy Hotel - Snowmass/Aspen, Colorado
Register Today
PLAN AN ACADEMIC RETREAT! Earn a Suite Upgrade AND Free Food or Ski Lift Tickets PLUS one additional student registration at no charge with paid attendance of 10 or more from one school! Click HERE for details.

 ISCBacademy Webinar: COSI Series
 

Exciting October Line-up - Register today for an upcoming ISCBacademy Webinar:

 
Please use the link below to find more information or to register for:
 

October 5, 2021 at 11:00AM EDT - Alternative approach for discovering relationship between bacteriophages and antimicrobial resistance by Roumyana Yordanova, Hokkaido University and Bulgarian Academy of Sciences - Hosted by CAMDA

October 12, 2021 at 11:00AM EDT - Injecting Life into Visualizations for Biomedical Research by Marc Streit, Johannes Kepler University Linz - Hosted by BioVis

October 22, 2021 at 9:00AM UTC - Metabolic modelling of microbial interactions in microbiomes by Aarthi Karthik, Ravikrishnan Raman, and Dinesh Kumar - Hosted by ISCB

To propose a talk for an ISCBacademy Webinar click here.

Register Today!
 

 

 

 International Society for Computational Biology
 
Nominate a Colleague for an ISCB Awards
 

Awards Nominations Deadline - 06 December

Submit your nomination for one of these annual awards today. The program is nomination based and we strong encourage the submission of nominations that are diverse in nature.

The award winners will be announced in Spring 2022.

 
The Overton Prize was established by the ISCB in memory of G. Christian Overton, a major contributor to the field of bioinformatics and a member of the ISCB Board of Directors who died unexpectedly in 2000. The annual prize is awarded for outstanding accomplishment to a scientist in the early to mid-career stage (up to a decade post-degree or equivalent experience*), who has already made a significant contribution to the field of computational biology.
 
ISCB Overton Prize Award
 
 
The Senior Scientist Accomplishment Award recognizes a member of the computational biology community who is more than two decades post-degree (or equivalent experience) and has made major contributions to the field of computational biology.
 
ISCB Accomplishment by a Senior Scientist Award
 
 
The Outstanding Contributions to ISCB Award is in recognition of outstanding service contributions by any member toward the betterment of ISCB through exemplary leadership, education, service, or a combination of the three.
 
 
ISCB Outstanding Contributions to ISCB Award
 
 
The ISCB Innovator Award is given to a leading scientist, 10-20 years post-degree (or equivalent experience*), who consistently makes outstanding contributions to the field of computational biology and continues to forge new directions.
 
ISCB Innovator Award
 

Nominate a Fellow

Fellows Nominations Deadline - 09 December 

The International Society for Computational Biology introduced the ISCB Fellows Program in 2009 to honor members that have distinguished themselves through outstanding contributions to the fields of computational biology and bioinformatics. During the inaugural year of the program, ISCB conferred the Fellow status on the seven winners-to-date of the ISCB Accomplishment by a Senior Scientist Award, and recognized these distinguished scientists during the ISMB/ECCB 2009 conference in Stockholm, Sweden. Since then, ISCB has sought nominations from our community of members, which are reviewed and voted upon by a selection committee. New Fellows are introduced at each year's ISMB conference.

Only members can nominate.

Nominate a Fellow

 

 

 

 

International Society for Computational Biology
ISCB EQUITY DIVERSITY AND INCLUSION  2020-2021 ANNUAL REPORT
ISCB EQUITY DIVERSITY AND INCLUSION 
2020-2021 ANNUAL REPORT
 
Equity, Diversity and Inclusion (EDI) Committee of the International Society for Computational Biology (ISCB)
September 2021
 
Terry Gaasterland (Chair), University of California San Diego, USA, Lucia Peixoto (Chair) Washington State University, USA, Luis Pedro Coelho, Fudan University, China, Casey Greene, University of Colorado School of Medicine, Denver, USA, Priscila Grynberg, MBRAPA, Brazil, Anne-Christin Hauschild, University of Marburg, Germany, Larry Hunter, University of Colorado, Denver, USA, Shirley Liu, Dana Farber Cancer Institute, USA, Tijana Milenkovic, University of Notre Dame, USA, Gonzalo Parra, EMBL, Germany
The International Society for Computational Biology is committed to creating a safe, inclusive, and equal society for all our members. These values are enshrined in the ISCB’s Code of Conduct, values and ethics. We acknowledge, respect, and promote the value of having a diverse community. The ISCB’s Equity, Diversity, and Inclusion (EDI) Committee is an ISCB Outreach Committee and serves the ISCB Board of Directors by considering our shared experiences, and promoting a respectful community that honors the humanity of all. 
 
In principle and in practice, ISCB values and seeks diverse and inclusive participation within the field of computational biology and bioinformatics. ISCB promotes involvement and expanded access to leadership opportunities regardless of race, ethnicity, gender, religion, age, sexual orientation, nationality, disability, appearance, geographic location, or professional level.  ISCB EDI Committee has prepared this annual diversity report which measures the success of diversity promotion within societal activities, specifically leadership, Intelligent Systems for Molecular Biology (ISMB) conference keynote selection, Society’s Awards and election of ISCB Fellows.  The report below details the strategic map for equity, diversity, and inclusion, the tools that have been put in place to support knowledge-building within the area, and where ISCB could improve it’s diversity, equity, and inclusion efforts.   ISCB recognizes that to change the impact of diversity, equity, and inclusion within the field, we ourselves as an organization need to ensure we are equitable and diverse. 
 

SUMMARY OF ISCB EDI RESOURCES INITIATIVES

 
EDI Strategic Plan (2020-2021) 

Components:
  • Initiatives to increase social accountability for change in the ISCB society
  • Obtaining data and developing measures to assess progress
  • Voluntary training: The “ISCB Awareness toolkit”
  • Recruitment initiative
  • Mentoring
Read ISCB’s EDI Strategic Plan
Read ISCB's awareness toolkit associated with the Strategic Plan

EDI Statements and Policies EDI Initiatives 

1.  EDI seminar series

2020-2021: Indigenous Voices in Computational Biology https://www.iscb.org/edi-seminar-series


2.  Women’s history month 2021, daily feature of outstanding women in Computational Biology. 

ANALYSIS OF THE DATA and RECOMMENDATIONS

 
The ISCB Equity, Diversity and Inclusion (EDI) Committee would like to thank the ISCB membership for their participation in the diversity survey of the Society. Your willingness to voluntarily complete this information has given the committee the ability to take a deeper-dive to assess our progress on ensuring equity within the field of Bioinformatics and Computational Biology.   The data presented in this report (as of June 30, 2021) can be viewed in detail at the end of the report.  Based on the survey the ISCB membership is diverse in terms of ethnic origin (53% of those responding are of non-European descent) but heavily male biased. 
 
However, the data presented in this report may not yet accurately capture diversity within ISCB. Response rate on the survey was 75% on gender and 46% on ethnicity. There’s still a substantial number of members that have either not participated in the survey or have preferred not to declare status. We need higher member participation to obtain more accurate data.  The EDI Committee strongly encourages those who have not completed the survey to consider doing so to allow us the ability to make a more accurate analysis. 

ISCB LEADERSHIP & KEYNOTE SPEAKER SELECTION

 
Over the last ten years, ISCB, under the leadership of its presidents and the support of the Executive Committee, Board and membership, has seen significant increases in gender diversity within the leadership of the organization.  When ISCB incorporated in 1997, only two women were representatives on the ISCB Board of Directors. Today, 41% of the ISCB Board of Directors are female and 57% of the Executive Committee (elected officers) are female. Furthermore, 50% of the Committee and Advisory Council Chairs are female and the replacement of retiring/expiring Chairs is conscientiously considered to ensure at minimum gender diversity is achieved within the Committee and Advisory Council leadership.  
 
This conscious effort to ensure gender diversity continued in the selection of keynote speakers for the Intelligent Systems for Molecular Biology (ISMB) conference, ISCB’s flagship and most prestigious conference. 61% of ISMB selected keynote speakers were female between 2016 till present. To further support this initiative, guiding principles for speaker selection were put in place to encourage at least 30% female keynote speakers selection for all ISCB official conferences.  This specific threshold was selected as it represents 5% more than the known male/female breakdown of the professional ISCB membership. 

ISCB AWARDS AND HONORS

 
Whilst the final selection of awardees shows a good gender balance that reflects that of the membership, all ISCB awards and honors, except the service award, show a gender bias during the selection process that is most prominent at the nomination stage. Bias exists regardless of gender of the nominator. We do not know whether this is also true in terms of ethnicity. Given ISCB membership composition and the gender bias reported data, bias in ethnicity of honors is likely. The ISCB committees responsible for the selection of the awards, however, deserve recognition for their clear conscious efforts to ensure at minimum gender diversity at the final selection level, as you see from the data provided. Furthermore, following our review of the election of Fellows, we would also like to highlight the efforts made by the Fellows Committee to ensure the election of a diverse class of Fellows following the 2015 election. New procedures and processes have been put into place to ensure diversity at all levels.   
 
These achievements do not diminish, however, the need to improve the considerable bias at the nominations level.  Steps will be taken to correct this bias. We strongly encourage members to take part in nominating candidates and to use the ISCB awareness toolkit developed by the EDI committee before selecting their candidates. 
 
EDI COMMITTEE RECOMMENDATIONS FOR the ISCB BOARD OF DIRECTORS

1.  A deeper look at the award process is necessary. Some suggestions from the EDI committee to help mitigate bias in the award process:

•  Allow for self-nominations in addition to nominations by others.
•  Make the whole process after the nomination more transparent on the ISCB website, by publicizing the summary statistics both for the nominations and the awards made.
•  Make the award selection committee blind to the initial nomination process to avoid introducing bias based on who the nominator is (or isn’t if we allow self-nominations).
•  If introducing the measures above does not improve bias on awards, consider enforcing a ratio that matches the composition of the society (at the professional level) by the selection committees.

2.   Include completion of the ISCB awareness toolkit in membership profile survey and offer incentives for members to do so (conference ribbons, banners), especially for members that serve on ISCB committees. The fact that the initial nomination stage is where most of the bias is means our community needs to be educated regarding implicit bias.

3.  Our membership is quite diverse in terms of ethnic origin (53% of survey respondents are non-European descent), and many may have limited access to travel to the main conferences based on their location. As meetings go back to in-person, there is an opportunity to leverage our experience over the past year to make sure our meetings are inclusive of our membership. We support ISCB’s goal moving forward to offer as many conferences as financially feasible as hybrid events - in-person and virtual attendance. Conferences that are designed to be hybrid should have live-stream sessions from the conference location, archived recorded sessions that will be accessible to the registered attendance during and after the conference dates, virtual poster presentations and networking opportunities.  We support the continued growth of the ISCBacademy program - webinar series. The revision of our fee structure together with virtual options will ensure a more global and inclusive ISCB community

4.  In the future, we need to collect demographic info for abstract submitters, talk selections, invited talks, etc. for all ISCB-associated conferences. Our initial assessment supports the existence of bias in recognition in our community. Continuing to collect more and better data will help create better strategies on how to address it.

5.  Encourage empirical research into equity, diversity and inclusion in science that utilize rigorous data analysis. Include the following topic on calls for proceedings and abstracts for ISMB.  

Topic title: Equity-focused Research  
Description: This category is for research that examines issues of equity, representation, diversity, or other elements related to datasets, methods, or the field of computational biology at large.  
 
Consider and encourage such submissions also for the journal Bioinformatics Advances.

September 09, 2021:  ISCB Releases Inaugural Equity, Diversity, and Inclusion Report

STATE OF THE SOCIETY - DEMOGRAPHIC DATA

Click here for detailed data
 
 

 

International Society for Computational Biology

In principle and in practice, ISCB values and seeks diverse and inclusive participation within the field of computational biology and bioinformatics. ISCB promotes involvement and access to leadership opportunities regardless of race, ethnicity, gender, religion, age, sexual orientation, nationality, disability, appearance, geographic location, or professional level. As a leading organization in the field of Bioinformatics and Computational Biology, we understand that we have a responsibility to ensure we are promoting diversity within all our programs. ISCB recently conducted an audit (lead by the ISCB Equity, Diversity and Inclusion Committee) of our leadership, awards, Fellows and keynotes, focusing on the time period 2016 – 2021. This time period was selected because it was after the Fellows election in 2015 where ISCB found problems with adequate representation of the diversity of our scientific community in appropriate the election process that the leadership was determined to address. The EDI report is in its final stages and will be released soon.

The Society continues to make progress. We can see that the gender balance in our governance and awards reflect the professional membership of our society. However, problems exist as regards broader diversity. Furthermore, a major finding in the report is the bias that exists within the nomination stage of the ISCB awards and Fellows process. For example, for gender, whereas the M:F ratio for the professional membership is 3:1, the M:F ratio for nominations is 6:1 in some categories. We are determined to address these issues with diversity.

ISCB reminds the community of members that awards and Fellows are selected from nominated candidates.

Without the submission of nominations (or self-nominations starting for awards and Fellows consideration for 2022), the organization cannot improve its diversity among awardees and Fellows.

ISCB strongly encourages this community to read the recently accepted article by ISCB member Casey Greene about our award weaknesses and submit a candidate for consideration that helps us address this weakness.

Thank you in advance for celebrating a colleague of diversity with a nomination.

Annually, ISCB recognizes four scientist through its Awards program, as well as hosts a variety of computational science related competitions.
Self-nominations accepted. Nominations close on December 6th, 2021.

ISCB Overton Prize Award

ISCB Accomplishments by a Senior Scientist

Outstanding Contributions to ISCB Award

ISCB Innovator Award

 
ISCB introduced the ISCB Fellows Program in 2009 to honor members that have distinguished themselves through outstanding contributions to the fields of computational biology and bioinformatics. ISCB seeks nominations from our community of members, which are reviewed and voted upon by a
selection committee. Nominations will close on December 9, 2021.
Submit your nomination today