venue	important dates	registration	committees	program
IFAS - JKU	abstract submission	dinner	accommodation	sponsors

 

About MASAMB

Bioinformatics and statistical genetics, twin themes of the long-running series of annual MASAMB meetings, have gained huge impetus from large-scale genome sequencing projects and development of high-throughput biological assay systems, including gene-expression, proteomic, metabolomic and single-cell genomics technologies. These immense data resources, and the underlying complexities of molecular and cell biology, provide exciting research opportunities for numerate scientists.

With typically around 80-120 participants from mathematics, statistics, computer science, bioinformatics, biology and related fields, the MASAMB meetings provide an intimate setting for exchanging ideas in methodological and applied research. Research students and scientists newly entering the field of genomic research are particularly welcome and encouraged to submit abstracts. Details of previous meetings are available at the MASAMB archive at https://www.ebi.ac.uk/goldman-srv/masamb/

 

Venue

The 30th annual Annual Workshop on Mathematical and Statistical Aspects of Molecular Biology (MASAMB) will be hosted by the Department of Applied Statistics at the Johannes Kepler University Linz (JKU) and will take place at the Lecture Hall Wing at the JKU campus (magenta colored building on the following campus map) from 31st August to 1st September, 2023.

Important Dates

Registration for in-person participation	till August 15
Registration for online participation	till August 27
Abstract submission	till June 20
Notifications of acceptance of submissions	till June 16
Conference	August 31 - September 1

Registration

For registration to MASAMB23 the following steps are necessary:

1. Create a new user account via https://conferences.jku.at/masamb23/user/register
   In this case, you will get an e-mail with a link that leads to a page where you can set a password.
2. Log in
   • with your username and password via https://conferences.jku.at/masamb23/user/login
   • via JKU Account (Shibboleth available for JKU employees only)
3. Registration to the conference via "MY REGISTRATION → EVENT REGISTRATION"

Participants will receive an automatic confirmation of the registration. If you do not obtain anything, please send an e-mail to MASAMB23@jku.at to make sure that the organizer has received your booking. Registration will only be effective on receipt of the registration fee or after authorization of credit card payment. Please notify any corrections to your registration immediately to MASAMB23@jku.at

Registration is open now until August 15 for participation in person and until August 27 for online participation.

Registration fees

IN PERSON until August 15, 2023
Academic: 95 €
Student: 70€
Industry: 150 €

VIRTUAL until August 27, 2023
Academic: 35 €
Student: 25€
Industry: 50 €

In addition, you can purchase tickets for the
    • conference dinner for accompanying persons: 45€
Only possible at the time of registration.

Conference registration fees include

    • Access to all sessions
    • Access to coffee breaks
    • Conference materials
    • Conference dinner

We will try to provide some travel support for young researchers who cannot receive sufficient support from their home institution. If you need support please let us know together with the submission of your abstract.

Abstract submission

Program Committee

Rui Borges

Andreas Futschik

Nick Goldman

Asger Hobolth

Carolin Kosiol

Marta Pelizzola

Lukas Weilguny

Local Organizers

Andreas Futschik

Yuehao Xu

Yuexuan Wang

Elke Wolfsegger

Helmut Waldl

Scientific Program

Location: Lecture Wing Tract (Hall C for registration and breaks, lecture room 5 for talks), lunches are in the MENSA building

Thursday, August 31, 2023

9:30 – 12:00 Registration

10:15 – 10:30 Welcome

10:30 – 12:35 Session A: Phylogeny (Chair: Rui Borges)

• Ioanna Kotari, Carolin Kosiol, Rui Borges
  “The patterns of codon usage between chordates and arthropods are different but co-evolving with mutational biases”
• Gladys Poon, Aditi Vedi, Mathijs Sanders, Peter Valk, Elisa Laurenti, Jamie Blundell
  “Clonal evolution preceding cancer revealed using single-cell DNA sequencing and computational modelling”
• Svitlana Braichenko
  "PoMo via RevBayes: Inferring Phylogenies, Disentangling GC-bias and Balancing Selection"
• Hannah Götsch, Franz Baumdicker
  “Unmasking the Sampling Bias of Prokaryotic Genomes”
• Klaus Schliep
  “Inferring tipdated phylogenies from distances”

12:35-14:10  Lunch Break

14:10 – 15:25 Session B: Selection and Mutation (Chair: Claus Vogl)

• Carolin Kosiol
  “Selection of the fly – Bayesian methods to detect targets of selection in Evolve-and-Resequence experiments”
• Yuehao Xu
  “Signature-Informed Selection Detection: A Novel Method for Multi-Locus Wright-Fisher Models with Recombination”
• Marta Pelizzola, Ragnhild Laursen, Asger Hobolth
  “Inclusion of opportunities and large nucleotide contexts give robust and accurate mutational signatures”

15:25 -15:45 Coffee Break

15:45 – 17:00 Session C: Demography (Chair:Marta Pelizzola)

• Lynette Caitlin Mikula, Claus Vogl
  “When is the past in the past?: Modelling the effect of demographic history on sample allele spectra via polynomial diffusions”
• Ronja Jessica Billenstein
  “Evaluation of Bayesian genealogy-based coalescent models for demographic inference”
• Rui Borges
  “Inferring demography along the phylogeny”

17:00 – 17:45 Poster Session

• Ariane Weber, Sanni Översti, Denise Kühnert:
  "Multiple independent introductions in Bayesian phylodynamics"
• Diogo Ribeiro, Rui Borges, Christian Schlötterer:
  "Uncovering signatures of selection from experimentally evolved populations with Machine Learning"
• Gerd Specht, Arthur Kocher, Denise Kühnert:
  "GGARG: An R package for visualisation of (ancestral) recombination and horizontal gene transfer in phylogenetic trees"
• Sanni Översti, Alexander Dilthey, Denise Kühnert:
  Capturing superspreading patterns of SARS-CoV-2 with phylodynamics"

Evening (from 18:30): Conference Dinner (for registered participants)

Friday, September 1, 2023

9:00 – 10:40 Session D: Popgen Inference (Chair: Andreas Futschik)

• Fabrizio Mafessoni, Guy Tadmor, Avraham A. Levy
  “A probabilistic method to infer the role of INDEL-generating DNA repair mechanisms on genome diversity across species”
• Claus Vogl, Burcin Yildirim
  “A reference for population genetic inference: GC-neutral mutations in short introns”
• Ichcha Manipur, Guillermo Reales, Jae Hoon Sul, Simonne Longerich, Adrian Cortes, Chris Wallace (remote talk)
  “CoPheScan: A Bayesian PheWAS approach”
• Haoyu Chen
  “Subset selection with applications to population genetics”

10:40 - 11:00 Coffee Break

11:00 – 12:40 Session E: Mixed Topics (Chair: Lukas Weilguny)

• Florian G. Pflug, Deepak Bhat, Simone Pigolotti
  “Inferring genome replication dynamics from DNA abundance in asynchronous populations”
• Konstantina Charmpi, Andreas Beyer
  “Methodological aspects on network propagation”
• Leiv Rønneberg, Paul Kirk
  “SQUAB: Simultaneous quantification and biomarker detection for in-vitro drug combination screens”
• Yuexuan Wang
  “Haplotype reconstruction via Bayesian linear models with unknown design”

12:40- 14:00 Lunch Break

14:00 – 15:40 Session F: Single Cell and RNA seq (Chair: Carolin Kosiol)

• Mariia Karapetiants
  “A normal mixture model to differentiate signal from noise in RNA-seq, ATAC-seq, and epigenetic mark ChIP-seq data”
• Elio Nushi
  “A Bayesian method for time reannotation of transcriptomics data”
• Lukas Weilguny, Nicola De Maio, Rory Munro, Charlotte Manser, Ewan Birney, Matthew Loose, Nick Goldman
  “Dynamic, adaptive sampling during nanopore sequencing using Bayesian experimental design”
• Julia Naas, Christiane Elgert, Arndt von Haeseler
  “From scRNA-seq count matrices to phylogenetic inference: rethinking the problem of lineage reconstruction”

15:40 Closing and Next Meeting

 

Conference Dinner

The conference dinner will take place on the evening of August 31 at the restaurant Stadtliebe in the center of Linz. Conference dinner is included in the registration fee for in-person participants. If you want to bring an accompanying person with you, it is mandatory to indicate it during the registration (extra fee applies). If you have any problem with registering please contact MASAMB23@jku.at

Accommodation

The following accommodations offer conference discounts

• Hotel Sommerhaus (close to the JKU campus)
  booking code word: Workshop MASAMB23
  single room: € 62 / double room: € 94
  breakfast and all fees included
  booking deadline: July 31
  contact: hotel@studentenwerk.at
• Harrys Home (1,7km; 20min walk to venue)
  booking code word: Workshop MASAMB23
  single room: € 95 / double room: € 115
  breakfast included additional visitor's tax € 2,20 per person and night
  booking deadline: July 31
  contact: reservierung@harrys-home.com
• Hotel Wolfinger (center of Linz, 30min tram ride to JKU)
  booking code word: Workshop MASAMB23
  single room: € 89 / double room for single use: € 115
  breakfast for an extra charge of € 15 per person and night
  booking deadline: June 30
  contact: office@hotelwolfinger.at
   

Sponsors

• Oberösterreichischer Hochschulfonds