Who & What
We are staff and students that sit together to discuss literature on genetic and epigenetic regulation of gene expression, and on other topics of genetics and evolution.
The JC is organised by Alessia Visconti & Maxim Freidin.

When & Where
We meet up 12.30pm on Wednesdays at the Department of Twin Research & Genetic Epidemiology
St Thomas’ Hospital Campus, 4th Floor South Wing Block D (Directions here)

Register to our mailing list here.

Upcoming meetings:

Date Presenter Paper
11/12/2019 Wed, 12.30pm Olatz Mompeo Masachs Comparison of adopted and non-adopted individuals reveals gene-environment interplay for education in the UK Biobank
15/01/2020 Wed, 12.30pm Ricardo Costeira TBA
29/01/2020 Wed, 12.30pm Simon Couvreur Is population structure in the genetic biobank era irrelevant, a challenge, or an opportunity?
12/02/2020 Wed, 12.30pm Philippa Wells Association of Genetic Risk for Rheumatoid Arthritis With Cognitive and Psychiatric Phenotypes Across Childhood and Adolescence
11/03/2020 Wed, 12.30pm Shafiqur Rahman Extreme Polygenicity of Complex Traits Is Explained by Negative Selection

Past meetings:

Date Presenter Paper
13/11/2019 Wed, 12.30pm Amy Roberts Genetic correlates of social stratification in Great Britain
16/10/2019 Wed, 12.30pm Maxim Freydin The multiplex network of human diseases
02/10/2019 Wed, 12.30pm Mark Simcoe Recovery of trait heritability from whole genome sequence data
18/09/2019 Wed, 12.30pm Paraskevi Christofidou Quantitative analysis of population-scale family trees with millions of relatives
26/06/2019 Wed, 12.30pm Alessia Visconti Scale-free networks are rare
12/06/2019 Wed, 12.30pm Giulia Beatrice Piaggeschi Cell Specific eQTL Analysis without Sorting Cells
29/05/2019 Wed, 12.30pm Antonino Zito Single-cell RNA sequencing identifies cell-type-specific cis-eQTLs and co-expression QTLs
01/05/2019 Wed, 12.30pm Maxim Freydin Learning one’s genetic risk changes physiology independent of actual genetic risk
05/04/2019 Fri, 11am Adewale Adebayo Identification of 12 genetic loci associated with human healthspan
22/03/2019 Fri, 11am Amy Roberts Whole-genome sequencing identifies complex contributions to genetic risk by variants in genes causing monogenic systemic lupus erythematosus
08/03/2019 Fri, 11am Karina Patasova A primer on deep learning in genomics
22/02/2019 Fri, 11am Shafiqur Rahman Assessing the Pathogenicity, Penetrance, and Expressivity of Putative Disease-Causing Variants in a Population Setting
08/02/2019 Fri, 12pm Mark Simcoe Estimating SNP-Based Heritability and Genetic Correlation in Case-Control Studies Directly and with Summary Statistics
25/01/2019 Fri, 12pm Maxim Freydin Large-scale investigation of the reasons why potentially important genes are ignored.
11/01/2019 Fri, 12pm Marcel van de Streek Modified penetrance of coding variants by cis-regulatory variation contributes to disease risk.
07/12/2018 Fri, 12pm Philippa Wells DADA2: High-resolution sample inference from Illumina amplicon data
09/11/2018 Fri, 12pm Juan Castillo Fernandez Module Analysis Captures Pancancer Genetically and Epigenetically Deregulated Cancer Driver Genes for Smoking and Antiviral Response.
12/10/2018 Fri, 12pm Olatz Mompeo Masachs Height, body mass index, and socioeconomic status: mendelian
randomisation study in UK Biobank.
28/09/2018 Fri, 12pm Marianna Sanna Genomic history of the Sardinian population.
06/07/2018 Fri, 12pm Antonino Zito Intra-tumour diversification in colorectal cancer at the single-cell level.
22/06/2018 Fri, 12pm Alessia Visconti Functional mapping and annotation of genetic associations with FUMA.
25/05/2018 Fri, 12pm Marcel van de Streek Characterizing the genetic basis of transcriptome diversity through RNA-sequencing of 922 individuals.
11/05/2018 Fri, 12pm Niccolo’ Rossi G = E: What GWAS Can Tell Us about the Environment.
27/04/2018 Fri, 12pm Juan Castillo Fernandez DNA methylation-based biomarkers and the epigenetic clock theory of ageing.
09/03/2018 Fri, 12pm Alex Couto Alves Recent natural selection causes adaptive evolution of an avian polygenic trait.
19/01/2018 Fri, 12pm Antonino Zito Landscape of X chromosome inactivation across human tissues.
01/12/2017 Fri, 12pm Marcel van de Streek Genetic effects on gene expression across human tissues.
06/11/2017 Fri, 12pm Juan Castillo Fernandez Caloric restriction delays age-related methylation drift.
06/10/2017 Fri, 12pm Alessia Visconti An atlas of genetic associations in UK Biobank.
29/09/2017 Fri, 12pm Niccolo’ Rossi An Integration of summary data from GWAS and eQTL studies predicts complex trait gene targets.
30/06/2017 Fri, 12pm Alex Couto Alves An Expanded View of Complex Traits: From Polygenic to Omnigenic.
26/05/2017 Fri, 12pm Mariana Sanna Analysis of protein-coding genetic variation in
60,706 humans.
12/05/2017 Fri, 12pm Niccolo’ Rossi A semi-synthetic organism with an expanded genetic alphabet.
05/05/2017 Fri, 12pm Imogen Potter Diet-Microbiota Interactions Mediate Global Epigenetic Programming in Multiple Host Tissues.
28/04/2017 Fri, 12pm Maxim Freydin Selection against variants in the genome associated with educational attainment.
17/03/2017 Fri, 12pm Mariana Sanna Epigenetic and genetic dissections of UV-induced global gene dysregulation in skin cells through multi-omics analyses.
10/03/2017 Fri, 12pm Niccolo’ Rossi Genome evolution predicts genetic interactions in protein complexes and reveals cancer drug targets.
03/02/2017 Fri, 12pm Mariana Sanna Derived immune and ancestral pigmentation alleles in a 7,000-year-old Mesolithic European.
20/01/2017 Fri, 12pm Mariana Sanna Integrated computational approach to the analysis of RNA-seq data reveals new transcriptional regulators of psoriasis.
13/01/2017 Fri, 12pm Niccolo’ Rossi Epistasis and natural selection shape the mutational architecture of complex traits.
16/12/2016 Fri, 12pm Juan Castillo Fernandez Genetic Drivers of Epigenetic and Transcriptional Variation in Human Immune Cells.
09/12/2016 Fri, 12pm Yuko Kurushima Correlation of Smoking-Associated DNA Methylation Changes in Buccal Cells With DNA Methylation Changes in Epithelial Cancer.
25/11/2016 Fri, 12pm Serena Verdi Epigenetic modulation of chronic anxiety and pain by histone deacetylation.
11/11/2016 Fri, 12pm Alex Couto Alves A new view of transcriptome complexity and regulation through the lens of local splicing variations.
14/10/2016 Fri, 12pm Helena Wells Revisiting telegony: offspring inherit an acquired characteristic of their mother’s previous mate.
26/08/2016 Fri, 2pm Alex Couto Alves Sex speeds adaptation by altering the dynamics of molecular evolution.
19/08/2016 Fri, 2pm Craig Glastonbury Tempo and mode of genome evolution in a 50,000-generation experiment.
29/07/2016 Fri, 1pm Antonino Zito Main paper: Unique features of long non-coding RNA biogenesis and function.
Supplementary paper: The Landscape of long noncoding RNA classification.
07/07/2016 Thu, 1pm Alex Couto Alves Genetic mapping uncovers cis-regulatory landscape of RNA editing.
24/06/2016 Fri, 1pm Clémence Pinel Epistemic modesty, ostentatiousness and the uncertainties of epigenetics: on the knowledge machinery of (social) science.
10/06/2016 Fri, 1pm Alex Couto Alves The multiple testing burden in sequencing-based disease studies of global populations.
27/05/2016 Fri, 2pm Craig Glastonbury Biology of genomes (videos).
26/05/2016 Thu, 2pm Craig Glastonbury Biology of genomes (videos).
19/05/2016 Thu, 1pm Craig Glastonbury Biology of genomes (videos).
28/04/2016 Thu, 1pm Alex Couto Alves Comparative evaluation of isoform-level gene expression estimation algorithms for RNA-seq and exon-array platforms.
24/03/2016 Thu, 1pm Tiphaine Martin Modelling local gene networks increases power to detect trans-acting genetic effects on gene expression.
17/03/2016 Thu, 1pm Alex Couto Alves Multiple Testing Procedures and
Applications to Genomics.
Resampling-Based Multiple Hypothesis Testing with Applications to Genomics: New Developments in the R/Bioconductor Package multtest.
25/02/2016 Thu, 12pm Elena Carnero Montoro Population-specificity of human DNA methylation.
19/02/2016 Fri, 3.30pm Tiphaine Martin Ribosome profiling: new views of translation, from single codons to genome scale.
05/02/2016 Craig Glastonbury Fine-mapping cellular QTLs with RASQUAL and ATAC-seq.
29/01/2016 Alex Couto Alves Alternative Splicing QTLs in European and African Populations
22/01/2016 Antonino Zito Abundant contribution of short tandem repeats to gene expression variation in humans.
15/01/2016 Abhishek Nag The UK10K project identifies rare variants in health and disease.
04/12/2015 Alexander Zlobin Identification of a large set of rare complete human knockouts (in Icelanders).
27/11/2015 Craig Glastonbury Predicting quantitative traits from genome and phenome with near perfect accuracy.
20/11/2015 Tiphaine Martin Large multiallelic copy number variations in humans.
13/11/2015 Craig Glastonbury Buffet-Style Expression Factor-Adjusted Discovery Increases the Yield of Robust Expression Quantitative Trait Loci.
30/10/2015 Alex Couto Alves An atlas of genetic correlations across human diseases and traits.
23/10/2015 Elena Carnero Montoro The fine-scale genetic structure of the British population.
16/10/2015 Alessia Visconty & Maxim Freydin LD Score regression distinguishes confounding from polygenicity in genome-wide association studies.
Partitioning heritability by functional annotation using genome-wide association summary statistics.
09/10/2015 Maxim Freydin Partitioning heritability by functional annotation using genome-wide association summary statistics.
02/10/2015 Alex Couto Alves Normalization of RNA-seq data using factor analysis of control genes or samples.
18/09/2015 Alex Couto Alves RNA-Seq gene expression estimation with read mapping uncertainty.
11/09/2015 Alex Couto Alves Mapping and quantifying mammalian transcriptomes by RNA-Seq.
04/09/2015 Antonino Zito Evaluation of the Infinium Methylation 450K technology.
28/08/2015 Craig Glastonbury Systematic evaluation of spliced alignment programs for RNA-seq data.
21/08/2015 Tiphaine Martin & Alex Couto Alves Genetic and epigenetic fine mapping of causal autoimmune disease variants.
14/08/2015 Craig Glastonbury Integrative analysis of 111 reference human epigenomes.
07/08/2015 Elena Carnero Montoro & Maria Needhamsen ChromHMM: automating chromatin-state discovery and characterization.
Unsupervised pattern discovery in human chromatin structure through genomic segmentation.
31/07/2015 Alex Couto Alves Landscape of transcription in human cells (revisited).
24/07/2015 Alex Couto Alves An integrated encyclopedia of DNA elements in the human genome (revisited).
17/07/2015 Alex Couto Alves Intersecting transcription networks constrain gene regulatory evolution
10/07/2015 Craig Glastonbury Cell specific eQTL analysis without sorting cells
03/07/2015 Tiphane Martin Widespread seasonal gene expression reveals annual differences in human immunity and physiology
26/06/2015 Maxim Freydin Special session on the Belyaev experiment (Destabilizing selection as a factor in domestication)
19/06/2015 Alex Couto Alves The Genotype-Tissue Expression (GTEx) pilot analysis: multitissue gene regulation in humans
12/06/2015 Elena Carnero Montoro Additive, Epistatic, and Environmental Effects Through the Lens of Expression Variability QTL in a Twin Cohort
5/06/2015 Dunja Vucenovic The role of chromosome domains in shaping the functional genome
15/05/2015 Dunja Vucenovic Single-cell Hi-C reveals cell-to-cell variability in chromosome structure
17/04/2015 Alex Couto Alves Gene-gene and gene-environment interactions detected by transcriptome sequence analysis in twins
20/03/2015 Dunja Vucenovic Chimeras taking shape: Potential functions of proteins encoded by chimeric RNA transcripts