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Call for Proceedings - OPENS November 28, 2022

Proceedings Co-chairs:

Yann Ponty, CNRS; Laboratoire d'Informatique de l'Ecole Polytechnique France
Sushmita Roy, University of Wisconsin Madison, United States


Proceedings Overview

ISMB/ECCB 2023 invites submissions of full papers (not abstracts) consisting of new, unpublished work, reporting theoretical, computational, and statistical advances in computational biology and its intersections with other fields.

Submissions are encouraged to report on advances in algorithm development and optimization, data structures, data visualization, artificial intelligence/machine learning, text mining, statistical inference, database and ontology development, image analysis, citizen and open science, etc. to analyze all types of biological data.

While we encourage submissions in new and emerging areas, we expect that the majority of submissions addressing topical biological domains will fall into one of the areas below. Please note during the EasyChair submission process you will: 1) select your "Area" (list below) and 2) select the COSI(s) most suited for presentation of your research from within the area. (learn more about COSIs here).

For a variety of reasons, ISCB/ECCB strongly prefers that scientific research accepted for oral presentation be presented in-person at the conference venue.  Of course, we understand that some presenters will have good reasons to avoid in-person attendance. ISCB/ECCB will grant remote presentation options for reasons associated to maternity/paternity leave, care for a family member, personal/medical disability, sickness, financial hardship, or potential visa problems.  If your research is accepted for oral presentation and you are unable to present in person, ISCB/ECCB requires notification at the time of acceptance. You will be asked during your confirmation of participation to confirm your in-person participation. If unable to participate you will need to request a waiver by writing This email address is being protected from spambots. You need JavaScript enabled to view it.

All presenters will be required to provide a pre-recorded talk for the virtual platform library in advance of the conference. The pre-recorded talk will be available shortly after the live presentation to provide faster and more seamless access to the conference content for virtual participants.

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Proceedings Publication Fee

ISCB introduced publishing fees for ISMB Conference Proceedings beginning with ISMB/ECCB 2021. Authors of accepted Proceedings papers are required to cover the publication fee for their accepted paper if they are able to do so. The publication fee of $700 for ISMB/ECCB 2023. This is a substantial reduction from the publication fees customary for OUP journals.

Publication fee payments are due by April 28, 2023. The online proceedings payment system will open April 10, 2023.

Authors are responsible for the publication fee of $700 USD. ISCB is committed to supporting all of its members, especially those from under-developed nations and/or those without funding.  If your manuscript is accepted and you are unable to pay for the publications fees in part or in full, you may submit a fee waiver request to This email address is being protected from spambots. You need JavaScript enabled to view it..  Please provide your name, full institute address, and a short (up to 50 words) justification of why you are unable to cover the publication fee with the subject line of ISMB/ECCB 2023 Publications Fee Waiver Request.

Proceedings publications are part of an online-only special issue of Bioinformatics and are open access (CC-BY), fully citable, and indexed by Medline and ISI. See the conference proceedings for ISMB 2022 for an example of online-only publication by Oxford University Press.

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Areas:

Bioinformatics Education
(COSIs within this area include: Education)

Chair(s): TBD
Systematic examination and analysis of learning models, outcomes, and educational programs, Systematic examination and analysis of learning models, outcomes, and educational programs, Serious gaming and Game-ification.
Bioinformatics of Microbes and Microbiomes
(COSIs within this area include: BioVis, CAMDA, HiTSeq, MICROBIOME, MLCSB, NetBio, Text Mining)

Chair(s): TBD
Computational methods and algorithms for studying microbial organisms, viruses, and their communities from omics and marker data.
Biomedical Informatics
(COSIs within this area include: Bio-Ontologies, BioVis, CAMDA, Function, HiTSeq, iRNA, MLCSB, NetBio, Text Mining, TransMed, VarI)

Chair(s): TBD
Computational approaches to clinical and medical problems, including disease predisposition, diagnostic, progression, and treatment. Pharmacogenomics.
Evolutionary, Comparative and Population Genomics
(COSIs within this area include: BioVis, Evolution and Comparative Genomics, Function, HiTSeq, iRNA, MICROBIOME, MLCSB, VarI)

Chair(s): TBD
Phylogeny estimation, and modelling variation and change under the influence of evolutionary processes. Selection and adapatation. Multi-species analyses.
Genome Privacy and Security
(COSIs within this area include: HiTSeq, MLCSB, TransMed)

Chair(s): TBD
Methods related to the protection of individualized genomic and medical information; privacy models.
Genome Sequence Analysis
(COSIs within this area include: BioVis, Evolution and Comparative Genomics, Function, HiTSeq, iRNA, MICROBIOME, MLCSB, NetBio, RegSys, TransMed, VarI)

Chair(s): TBD
Assembly and mapping algorithms. Gene prediction and annotation. Detection, qualification, and annotation of genomic variants and their structural and functional effects.
Macromolecular Sequence, Structure, and Function
(COSIs within this area include: 3DSIG, Bio-Ontologies, BioVis, CompMS, Evolution and Comparative Genomics, Function, iRNA, MLCSB, RegSys, VarI)

Chair(s): TBD
Analysis and annotation of DNA, RNA, and proteins to predict, characterize, and understand their structure, function, and evolution. Includes imaging techniques for macromolecules.
Regulatory and Functional Genomics
(COSIs within this area include: Bio-Ontologies, BioVis, Evolution and Comparative Genomics, Function, HiTSeq, iRNA, MICROBIOME, MLCSB, NetBio, RegSys)

Chair(s): TBD
Transcriptomics, single-cell RNA techniques, non-coding RNA, epigenetics, chromatin structure.
Systems Biology and Networks
(COSIs within this area include: Bio-Ontologies, BioVis, CompMS, Function, MICROBIOME, MLCSB, NetBio, RegSys, Text Mining, TransMed)

Chair(s): TBD
Emergent properties and complex multi-component interactions within biological systems, considering genomic, proteomic, metabolomic, and other -omic data; gene regulation and circuit design.
Equity-focused Research
(Of interest to all COSIs)

Chair(s): TBD
This area 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, Health policy, Fairness in ML, Biases in GWAS studies, Bias in literature and/or opportunity.
General Computational Biology*

Chair(s): TBD

*You are encouraged to submit to one of the other 10 thematic areas. If you feel your contribution is at the intersection of many fields, please pick one. If you still want to submit to this area, you will be asked to explain why. Please note that the submissions in this area and others are likely to be moved, subject to chairs’ considerations.
Novel techniques in emerging areas of computational biology, including intersections with other fields.

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Proceedings Key Dates

Proceedings Submission Key Dates
Monday, November 28, 2022 Call for Proceedings Opens
Thursday, January 19, 2023 
(11:59 PM Any Timezone)
Proceedings Submission Deadline
*No extension will be granted*
Thursday, March 9, 2023 Conditional Acceptance Notification
Thursday, March 23, 2023 Revised Papers Deadline
Monday, April 10, 2023 Final Acceptance Notification
Friday, April 28, 2023 Publication Fees Due
TBD Dates: TBD: Speaker presentations upload videos through delegate profile on conference platform. Videos become part of the conference library.

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Review Process

Submissions will be subject to two rounds of reviews, allowing the authors to reply to the reviewer comments. In the first round the submissions will be classified into three categories: (a) accept/minor changes, (b) major changes, and (c) not accepted. Papers in the first category will be considered “conditionally" accepted without a second round of full review; Area Chairs would review the final version and in some cases ask the reviewers if concerns, if any, have been addressed. Authors of submissions in the second category will be given the opportunity to submit revised drafts based on the reviewer comments, with letters of response to the reviewers outlining the main changes and/or giving counter arguments to the reviewer points.

We expect the majority of papers to fall in categories (a) and (c), with category (b) reserved for papers that the reviewers identified as strong but with substantial issues that need to be addressed. Among the resubmitted papers, the second round of review will select the most suitable papers for presentation. All reviews of submitted papers are considered confidential and details are not disclosed outside of the review process. These will be published in the Bioinformatics journal and presented at the conference. All accepted papers are expected to have source code available and linked in the manuscript to ensure reproducibility of results.

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Transfers to Bioinformatics Advances

Getting your paper accepted to the ISMB/ECCB Proceedings is very competitive. For papers which are ranked highly but are not accepted we will be making offers to transfer some manuscripts to the ISCB journal Bioinformatics Advances. Manuscripts and the associated ISMB reviews would only be transferred to the journal upon author agreement. By transferring the reviews rapid decisions can be made by the journal. Papers accepted to Bioinformatics Advances would NOT be a part of the ISMB/ECCB 2023 Proceedings and would NOT be offered a talk. Please also note that Bioinformatics Advances is fully open access and that the normal Open Access Charges for the journal would apply.

Authors may opt out of this transfer process at submission time. 

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Submission Guidelines

Papers can be submitted in either a template-free format or by following the template for author submission to the OUP journal Bioinformatics. You are encouraged to submit in the OUP format. If the OUP template is used the paper length must not exceed nine pages. If the template-free format is used the length of the paper must not exceed 12 pages (single space, 12 point font), including abstract, figures, tables, and bibliography. In either case, the paper must contain an abstract whose length does not exceed 250 words.

Authors of submissions will select one of ten areas most suitable for their paper. During submission authors will be able to identify topics (COSI areas) relevant to their submission. During the review process three reviews will be sought. Papers may be moved between areas as appropriate - this is often necessary for load balance and fit between areas during the review process.

If absolutely necessary, submissions can be accompanied by supplementary material, similar to submissions to scientific journals. The supplementary material should be collected in a separate file that is appropriately marked and uploaded as an attachment on the paper submission page in EasyChair. However, we advise against adding supplementary material, in general. Supplementary material will be published on the proceedings site alongside the online version of the conference paper. We do not support supplementary material presented at any other than the publisher's site. Additionally, OUP does not edit or typeset supplementary data - it is uploaded online exactly as it is received, so authors must ensure its accuracy before submitting.

Papers should be submitted in their final form since the evaluation procedure does not allow for additional rounds of refinement / modification in response to referee criticisms. Poor quality submissions or insufficiently prepared papers are very often rejected. Paper presenters must register and pay to attend and present at the conference.

ISMB does not accept previously published works through peer-reviewed publications. Please note that conference presentations, posting on recognized preprint servers (such as Arxiv, Biorxiv and PeerJ preprints), or posting on a personal or employer's website do not constitute prior publication. In case of doubt, please contact This email address is being protected from spambots. You need JavaScript enabled to view it.

After acceptance papers will have to be formatted according to the layout style required by the OUP Bioinformatics journal and will be limited to 9 pages. Formatting requirements can be found at: http://www.oxfordjournals.org/bioinformatics/for_authors/submission_online.html

Papers not conforming to guidelines will not be reviewed

Papers submitted for review should represent original, previously unpublished work. At the time the paper is submitted to ISMB/ECCB 2023, and for the entire review period, the paper should not be under review by any other conference or scientific journal.

Papers will be accepted electronically, in PDF format only, at the submission site until Thursday, January 19, 2023, 11:59 PM in the time zone of your choice. *No extension will be granted*

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Conference proceedings

Publication of the proceedings as an online part of the journal Bioinformatics will result in fully citable articles, indexed by Medline and ISI. See the conference proceedings for ISMB 2022 (here) for an example of online-only publication by Oxford University Press.

Accepted papers will be published as conference proceedings in an open access, online-only, section of a regular issue of the Bioinformatics journal with an electronic version distributed to conference delegates. The proceedings will be available online approximately one month prior to the conference opening.

ISMB/ECCB 2023 provides authors of accepted papers an oral presentation to provide an oral summary of their work. All presentations should be no longer than 20 minutes including 3-4 minutes for discussion. Paper presenters must register and pay to attend and present at the conference.

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Hybrid format

All presenters will be required to provide a pre-recorded talk for the virtual platform library in advance of the conference. The pre-recorded talk will be available shortly after the live presentation to provide faster and more seamless access to the conference content for virtual participants.

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Contact

Please contact This email address is being protected from spambots. You need JavaScript enabled to view it. for questions concerning the scientific content of submissions.

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