[CPM-SPIRE-L] RECOMB-seq 2025 Call for Papers: deadline extension

[Camille Marchet]

Dear colleagues,

Please note that the deadline for submitting papers to the overlay and
proceeding tracks of RECOMB-Seq 2025 has been extended by a week.
Full details about the call follow.

Best regards.


#### RECOMB-seq 2025 Call for Papers

The 15th RECOMB Satellite Conference on Biological Sequence Analysis
(RECOMB-seq 2025) will be held on 24-25 April 2025 in Seoul, South Korea,
just before the main RECOMB conference. The conference brings together
leading researchers in computational genomics and genomic biology. The
emphasis will be on new algorithmic and statistical methods for the
analysis, management, inference, and interpretation of sequencing data as
well as assembled genomes.

#### Topics of Interest (including but not limited to)

 * Sequence alignment and assembly
 * Summarization, comparison, and visualization of big genomics datasets
 * Multiple alignment and consensus sequence construction
 * Methods for calling and characterizing genetic variants, including
structural variants
 * Methods for analysis of RNA sequencing (RNA-seq) data, including
single-cell RNA-seq
 * Epigenetics and gene regulation, including ChIP-seq analysis,
methylation profiling, and histone modification
 * Metagenomics
 * Methods for analysis of data from other novel sequencing assays
 * Translational applications of sequencing data, including cancer genomics
and infectious disease
 * Pan-genomics, genome graphs, and novel uses of new genome assemblies

#### Key Dates

Proceedings and Overlay tracks: **deadline extension**

 * Abstract registration deadline: January 31, 2025 at 23:59 AoE
 * Submission deadline: February 7, 2025 at 23:59 AoE (updates to existing
registered abstracts only)
 * Author notification: March 3, 2025 March 10, 2025

Short talks / Posters

 * Abstract submission deadline: March 7, 2025 at 23:59 AoE
 * Authors will be notified shortly after submission

#### Tracks

We solicit contributions in three categories (“tracks”) as follows.

##### Proceedings Track

Manuscripts describing original work on computational aspects of genomic
research involving large genomic datasets. Manuscripts in this track will
be considered for publication in a special issue of the journal iScience.
At the time of submission, and for the entire review period, the work
should not be under review by any other conference or scientific journal.
In some rare cases, manuscripts may be deemed to not be suitable for
iScience after review but still invited for an oral presentation at
RECOMB-seq. In this case, authors will be required to post their
manuscripts on a public preprint server (bioRxiv, arXiv, etc.) prior to the
conference.

To indicate your submission should be considered for the proceedings track,
please include “[Proceedings]” at the end of the paper title.

##### Overlay Track

Manuscripts submitted to this track will be reviewed by the program
committee, and selected submissions will be invited for oral presentation.
The manuscript should be hosted on a public preprint server (bioRxiv,
arXiv, etc.) at the time of submission. There are no specific formatting
requirements, but the paper should generally be formatted in a way that
emphasizes the methodological contributions. We also encourage authors to
keep the manuscripts within similar length limits as for the proceedings
track. Manuscripts can be submitted elsewhere at the same time but should
not be published or in press at the time of submission, and authors will be
required to post their manuscripts on a public preprint server (bioRxiv,
arXiv, etc.) prior to the conference. For manuscripts that are in press or
published, please consider the Highlights track of the main RECOMB
conference.

To indicate your submission should be considered for the overlay track,
please include “[Overlay]” at the end of the paper title.

##### Abstracts for short talks or posters

Regular abstracts describing original work, including software
applications. These will be considered for short oral presentations or
posters. A 1-2 page abstract describing the methods and key results should
be submitted via the EasyChair system.

#### Partnership with iScience

All submissions to the proceedings track will be simultaneously considered
for publication in a special issue of the journal iScience if the authors
agree. iScience is an open-access journal published by Cell Press for
original research in the life, physical, and earth sciences.

In addition to the program committee of RECOMB-seq, editors of iScience
will evaluate the proceedings-track papers for biological impact and
suitability for publication. In particular, the following criteria will be
used to evaluate the biological relevance:

 * Can inputs be found through experiments?
 * Can outputs be used directly in future experiments or analyses?
 * Can outputs be obtained through a well-established methodology for less
cost?
 * Is the methodology proposed applicable in useful settings?
 * Do biological data support the study?
 * Is biological variability sufficiently accounted for?

Authors who do not wish their manuscript to be considered for iScience
should use the overlay track for submission. Publication in iScience is
subject to an Open Access charge.

#### Paper and Abstract Submission Procedures

Manuscripts for the “proceedings track” should not exceed 10 pages using at
least 10-point font on U.S. standard 8 1/2 by 11-inch paper with no less
than one-inch margin all around. This excludes the cover page and
references. The cover page should have the title, the corresponding
author’s email address, and the abstract. An optional short appendix can be
included if necessary, but reading it will be at the discretion of the
program committee. Manuscripts must be submitted electronically in PDF
format via the EasyChair system.

In EasyChair, please select “RECOMB-seq 2025” track when you click “New
Submission” in the “author” portal within the RECOMB conference at
https://easychair.org/conferences/?conf=recomb2025.

An author of each accepted paper and abstract is expected to attend the
workshop and present the work.

##### Special handling of papers submitted to RECOMB 2025

If you would like to submit a paper rejected by RECOMB 2025 main conference
to RECOMB-seq, you have the option to transfer your reviews. In that case,
please submit by the regular deadline and include in your submission a
Cover Letter that includes the reviews received from RECOMB together with a
rebuttal addressing the concerns raised by the reviewers. The submitted
manuscript should also be modified according to the reviews, or provide an
explanation of why modifications are unnecessary. All reviews will be
treated confidentially and will only be visible to the PC members. Note
that authors of papers rejected by RECOMB 2025 main conference may also
submit their papers without transferring their reviews if they wish to do
so.
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