Workshop on Mathematical and Statistical Aspects of Molecular Biology

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Workshop on Mathematical and Statistical Aspects of Molecular Biology

Thursday 25 Friday 26 April 2019

MASAMB workshop (Mathematical and Statistical Aspects of Molecular Biology) 30 years edition (1989-2019)

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.

 

Registration

The registration fee is:

  • 70 GBP for students

  • 95 GBP for researchers

  • 130 GBP for industry participants

Registration

Fees include workshop attendance, coffee, lunches, and conference dinner. For the delegates booking a room on-site through registration, breakfast on the April 26 will be provided.
All other meals are to be arranged by delegates.

MASAMB 2019 is a Genetics Society-sponsored meeting. To become a member of the Genetics Society, you can use the following link:

Genetics Society

Bursaries

Full bursaries have now been all awarded.
However, we still invite applications for bursaries to support on-site accommodation.
If interested, please enquire via email to:
demaio [at] ebi.ac.uk

Key dates

November 15, 2018

Registration opens

February 22, 2019

Bursary application deadline

March 1, 2019

Abstract submission deadline

April 1, 2019

Notification to selected speakers

25-26 April, 2019

Workshop

Accommodation

We still have limited on-site accommodation available for the night between the 25th and 26th of April. Costs for such rooms could still be covered by our bursaries.
To enquire regarding on-site accommodation and bursaries please email demaio@ebi.ac.uk
Delegates staying in Cambridge instead of booking on-site accommodation will need to arrange transportation between Cambridge and the Genome Campus, see section below. If more than one night is needed (e.g. for delegates traveling from abroad), we recommend the delegates to find accommodation in Cambridge (see for example here).

Transport

Transport from Cambridge (Station Rd by the corner of Tenison Rd) on April 25  at 10:00am (before the beginning of the conference) to the conference, and from the conference (main entrance stop) on April 26 at 15:30 (right after the end of the workshop) to Cambridge (Station Rd by the corner of Tenison Rd) will be served by Bus A.
Transport from the conference (Hinxton Hall stop) on April 25  at 22:30 (after the conference dinner) to Cambridge (Station Rd by the corner of Tenison Rd), and from Cambridge (Station Rd by the corner of Tenison Rd) on April 26 at 08:00 (right before the start of the second day of the conference) to the conference (main entrance stop) will be served by Bus B.
Seats on these buses have already been booked by attendees at registration.
If you want to book a seat on one of these buses, or for other similar enquiries, please email demaio@ebi.ac.uk

For those planning on arriving by car the satellite navigation postcode for the campus is CB10 1SD. On arrival at the Campus you should advise the security officer that you are attending the MASAMB conference.

Otherwise, please use the following link for information on how to reach the campus:

Travel Information

On your arrival please register at the security reception by the campus entrance and they will guide you to the EMBL-EBI South Building. As you enter the building you will see signage directing you downstairs to the registration desk. Registration opens at 10:00am on the 25th of April and at 8:30am on the 26th of April. Please note the South Building will not be open before 8:30am.

Abstract submission

Abstracts for posters and talks can be submitted via EasyChair following the link below.

Abstract Submission

Programme

Thursday, 25 April, 2019

10:00 Bus A leaving Cambridge (Station Rd by the corner of Tenison Rd) toward genome campus
10:00 - 13:30 Registration (EMBL-EBI South Building lower level)
11:00 - 12:30 Session 1: Systems Biology part 1 (all talks will be in the Kendrew Lecture Theatre, EMBL-EBI South Building lower level)
12:30 - 13:30 Buffet lunch and poster hanging
13:30 - 15:00 Session 2: Systems Biology part 2
15:00 - 15:30 Coffee break
15:30 - 16:50 Session 3: Single-Cell RNA Sequencing
16:50 - 17:05 Flash talks
17:05 - 19:30 Poster and drinks session (Kendrew foyer, EMBL-EBI South Building lower level), and room check-in for on-site accommodation at Mulberry Court
19:30 - 22:30 Conference dinner (Hinxton Hall, chestnut suite)
22:30 Bus B leaving campus (from the Hinxton Hall stop) towards Cambridge (Station Rd by the corner of Tenison Rd)

Friday, 26 April, 2019

8:00 Bus B leaving Cambridge (Station Rd by the corner of Tenison Rd) toward genome campus
8:30 - 9:00 Sign in and coffee
9:00 - 10:40 Session 4: Population Genetics
10:40 - 11:10 Coffee break
11:10 - 12:30 Session 5: Selection
12:30 - 13:30 Buffet lunch
13:30 - 14:50 Session 6: Phylogenetics
14:50 - 15:00 Closing Remarks
15:30 Bus A leaving campus (from main entrance roundabout) towards Cambridge (Station Rd by the corner of Tenison Rd)

Talks

Speakers are invited to prepare their slides in widescreen format (16:9) and email them to demaio@ebi.ac.uk before the 24th of April. For the 20 min talks, please allow time for questions (about 3-4 minutes) and change of speaker (about 1 min), so please aim for an approximately 15 min presentation. Posters have to be of size A1 or smaller.

Thursday, 25 April, 2019

Session 1: Systems Biology part 1
11:00 - 11:20 Magdalena Strauss Towards understanding molecular characteristics that predict gene essentiality in cancer cell lines
11:20 - 11:40 Paula Avello Fernández Heat the Clock: Entrainment and Compensation in Arabidopsis Circadian Rhythms
11:40 - 12:00 Anas Ahmad Rana A Bayesian nonparametric integration approach for functional regulatory network inference in haematopoietic development from multi-omics data
12:00 - 12:20 Felicity Allen Deconstructing CRISPR/Cas9 knock-outs: frame shifts, cut rates and gene effects
12:20 - 12:25 Flash talk Birgit Meldal Yeast Complexome - The Complex Portal rising to the challenge
12:25 - 12:30 Flash talk Rahuman Sheriff BioModels: a repository of curated mathematical models of biological and biomedical systems
Session 2: Systems Biology part 2
13:30 - 13:50 Sarah Henze Bayesian statistical inference based on MCMC facilitates the analysis of protease dynamics using tandem mass spectrometry measurements
13:50 - 14:10 Oliver Crook Quantifying uncertainty in the spatial sub-cellular proteome
14:10 - 14:30 Sumon Ahmed Uncovering gene-specific branching dynamics with a multiple output branched Gaussian Process (mBGP)
14:30 - 14:50 Grimur Hjorleifsson Using microbial strain correspondence to improve genomic and metabolomic clusterings
14:50 - 14:55 Katharina Imkeller Improving accuracy of phenotype detection in whole-genome CRISPR screens
14:55 - 15:00 Eldar Abdullaev Modelling Segmental Duplications in the Human Genome
Session 3: Single-Cell RNA sequencing
15:30 - 15:50 Anna Cuomo Single-cell RNA-sequencing of differentiating iPS cells reveals dynamic genetic effects on gene expression
15:50 - 16:10 Yuanhua Huang Vireo: Bayesian demultiplexing of pooled single-cell RNA-seq data without genotype reference
16:10 - 16:30 Felix Frauhammer Machine learning based classification on a ground truth single-cell RNA sequencing dataset
16:30 - 16:50 Tobias Heinen Modelling allelic imbalance in single-cell data
Flash talks
16:50 - 16:55 Tommi Mäklin Bacterial genome assembly from multi-strain sequencing data
16:55 - 17:00 Nathan Beka Optimizing parameters for a DNA library preparation model
17:00 - 17:05 Raquel Manzano Garcia Bioinformatics pipeline for Personalised Breast Cancer Program

Friday, 26 April, 2019

Session 4: Population Genetics
09:00 - 09:20 Anna Hutchinson Identifying Causal Genetic Variants - Not so credible Credible sets
09:20 - 09:40 Elena Vigorito Mapping cis-eQTL from RNA-seq data with no genotypes
09:40 - 10:00 Daniel Seaton Population genetics of in vitro neural differentiation
10:00 - 10:20 Asger Hobolth Phase-type distributions in population genetics
10:20 - 10:40 Andreas Futschik Efficient reconstruction of haplotypes using allele frequencies from a pool of individuals
Session 5: Selection
11:10 - 11:30 Michael Schimek On the use of kNN-based methods to detect signatures of selection in whole genome scans
11:30 - 11:50 Carolina Barata A Bayesian method to detect targets of selection in Evolve-and-Resequence experiments
11:50 - 12:10 Xinyu Yang Identifying signatures of evolutionary dynamics across cancer types
12:10 - 12:30 Rui Borges A polymorphism-aware phylogenetic model to measure signatures of allelic selection
Session 6: Phylogenetics
13:30 - 13:50 Julian Dosch Measuring the similarity between complex feature architectures
13:50 - 14:10 Lars Jermiin If it looks bad, it probably is...
14:10 - 14:30 Lukasz Reszczynski Characterisation of phylogenetic terraces and their impact on tree inference
14:30 - 14:50 Nicola De Maio Fast and accurate statistical evolutionary alignment

Programme committee

  • Stephen Eglen (University of Cambridge)
  • Carolin Kosiol (University of St Andrews)
  • Andreas Futschik (Johannes Kepler University Linz)
  • Chris Wallace (University of Cambridge)
  • Ingo Ebersberger (Goethe University Frankfurt)
  • Virginie Uhlmann (EMBL-EBI)
  • Pietro Lio' (University of Cambridge)
  • Gergely Szöllősi (Eötvös University Budapest)

Local organising committee

  • Nick Goldman (EMBL-EBI)
  • Gos Micklem (CCBI, University of Cambridge)
  • Nicola De Maio (EMBL-EBI)

Co-organizing Institute: Cambridge Computational Biology Institute (CCBI).

CCBI

EMBL-EBI - Kendrew Lecture Theatre
Wellcome Genome Campus Hinxton Cambridge CB10 1SD United Kingdom

The Kendrew Lecture Theatre in EMBL-EBI's South Building, situated with a view towards the amphitheatre, seats 150 people. The lecture theatre is equipped with three cameras for recording events remotely.

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Contact us

Have questions about the event? Please contact:

Twitter: #masamb2019

Event organiser

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