Dr Carl Anderson | Group Leader

Anderson, Carl

Carl is a statistical geneticist interested in using genetic and genomic data to further our understanding of immune-mediated diseases. He heads the Genomics of Inflammation and Immunity group at the Sanger Institute.

I have always been fascinated by the role that genetics plays in human variation. I strongly believe that identifying regions of the genome that influence susceptibility to a particular disease is an important first step towards understanding its biological basis. I consider myself very fortunate to be working as a geneticist at a time when it is possible to do just this, and I'm proud to have played a key role in projects that have identified over 300 associations between genetic variation and immune-mediated disease risk.

My team is now working on a number of experiments to extend our genetic association studies to uncover rare variants underlying inflammatory bowel disease risk (IBD). We are currently analysing whole-genome sequence data from approximately 5,000 IBD cases and 4,000 UK population controls (sequenced as part of the UK10K project) and whole-exome sequence data from 150 individuals with severe, early-onset IBD.

We are also undertaking a number of experiments to better understand the biological consequences of disease-associated genetic variation, the vast majority of which lie in non-coding parts of the human genome. This work involves screening the transcriptome (e.g. RNA-seq) and epigenome (e.g. ATAC-seq) of disease-relevant primary tissues (for example, epithelial and immune cells from the gastrointestinal tract) from patients and controls. We are also in the early-stages of designing experiments to look at the consequences of the intestinal microbiota on gene-expression and IBD risk. All of our IBD research is carried out in close collaboration with the UK IBD Genetics Consortium.

Publications

  • Genome-wide association study of primary sclerosing cholangitis identifies new risk loci and quantifies the genetic relationship with inflammatory bowel disease.

    Ji SG, Juran BD, Mucha S, Folseraas T, Jostins L et al.

    Nature genetics 2017;49;2;269-273

  • Genome-wide association study implicates immune activation of multiple integrin genes in inflammatory bowel disease.

    de Lange KM, Moutsianas L, Lee JC, Lamb CA, Luo Y et al.

    Nature genetics 2017;49;2;256-261

  • Exploring the genetic architecture of inflammatory bowel disease by whole-genome sequencing identifies association at ADCY7.

    Luo Y, de Lange KM, Jostins L, Moutsianas L, Randall J et al.

    Nature genetics 2017;49;2;186-192

  • Association analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations.

    Liu JZ, van Sommeren S, Huang H, Ng SC, Alberts R et al.

    Nature genetics 2015;47;9;979-86

  • Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis.

    Liu JZ, Hov JR, Folseraas T, Ellinghaus E, Rushbrook SM et al.

    Nature genetics 2013;45;6;670-5

  • Dense fine-mapping study identifies new susceptibility loci for primary biliary cirrhosis.

    Liu JZ, Almarri MA, Gaffney DJ, Mells GF, Jostins L et al.

    Nature genetics 2012;44;10;1137-41

  • Genome-wide association study identifies 12 new susceptibility loci for primary biliary cirrhosis.

    Mells GF, Floyd JA, Morley KI, Cordell HJ, Franklin CS et al.

    Nature genetics 2011;43;4;329-32

  • Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.

    Anderson CA, Boucher G, Lees CW, Franke A, D'Amato M et al.

    Nature genetics 2011;43;3;246-52

  • Synthetic associations are unlikely to account for many common disease genome-wide association signals.

    Anderson CA, Soranzo N, Zeggini E and Barrett JC

    PLoS biology 2011;9;1;e1000580

  • Genome-wide association study identifies a locus at 7p15.2 associated with endometriosis.

    Painter JN, Anderson CA, Nyholt DR, Macgregor S, Lin J et al.

    Nature genetics 2011;43;1;51-4

  • Evaluating the effects of imputation on the power, coverage, and cost efficiency of genome-wide SNP platforms.

    Anderson CA, Pettersson FH, Barrett JC, Zhuang JJ, Ragoussis J et al.

    American journal of human genetics 2008;83;1;112-9

  • Exploring the genetic architecture of inflammatory bowel disease by whole-genome sequencing identifies association at ADCY7.

    Luo Y, de Lange KM, Jostins L, Moutsianas L, Randall J et al.

    Nature genetics 2017;49;2;186-192

  • Genome-wide association study implicates immune activation of multiple integrin genes in inflammatory bowel disease.

    de Lange KM, Moutsianas L, Lee JC, Lamb CA, Luo Y et al.

    Nature genetics 2017;49;2;256-261

  • Genome-wide association study identifies distinct genetic contributions to prognosis and susceptibility in Crohn's disease.

    Lee JC, Biasci D, Roberts R, Gearry RB, Mansfield JC et al.

    Nature genetics 2017

  • A reference panel of 64,976 haplotypes for genotype imputation.

    McCarthy S, Das S, Kretzschmar W, Delaneau O, Wood AR et al.

    Nature genetics 2016;48;10;1279-83

  • Comprehensive screening of eight known causative genes in congenital hypothyroidism with gland-in-situ.

    Nicholas AK, Serra EG, Cangul H, Alyaarubi S, Ullah I et al.

    The Journal of clinical endocrinology and metabolism 2016;jc20161879

  • Class II HLA interactions modulate genetic risk for multiple sclerosis.

    Moutsianas L, Jostins L, Beecham AH, Dilthey AT, Xifara DK et al.

    Nature genetics 2015;47;10;1107-13

  • Association analyses identify 38 susceptibility loci for inflammatory bowel disease and highlight shared genetic risk across populations.

    Liu JZ, van Sommeren S, Huang H, Ng SC, Alberts R et al.

    Nature genetics 2015;47;9;979-86

  • Genetics in PSC: what do the "risk genes" teach us?

    Folseraas T, Liaskou E, Anderson CA and Karlsen TH

    Clinical reviews in allergy & immunology 2015;48;2-3;154-64

  • Generation of primary human intestinal T cell transcriptomes reveals differential expression at genetic risk loci for immune-mediated disease.

    Raine T, Liu JZ, Anderson CA, Parkes M and Kaser A

    Gut 2015;64;2;250-9

  • High-density mapping of the MHC identifies a shared role for HLA-DRB1*01:03 in inflammatory bowel diseases and heterozygous advantage in ulcerative colitis.

    Goyette P, Boucher G, Mallon D, Ellinghaus E, Jostins L et al.

    Nature genetics 2015;47;2;172-9

  • Monoallelic and biallelic mutations in MAB21L2 cause a spectrum of major eye malformations.

    Rainger J, Pehlivan D, Johansson S, Bengani H, Sanchez-Pulido L et al.

    American journal of human genetics 2014;94;6;915-23

  • Genetic studies of Crohn's disease: past, present and future.

    Liu JZ and Anderson CA

    Best practice & research. Clinical gastroenterology 2014;28;3;373-86

  • Heterozygous loss-of-function mutations in YAP1 cause both isolated and syndromic optic fissure closure defects.

    Williamson KA, Rainger J, Floyd JA, Ansari M, Meynert A et al.

    American journal of human genetics 2014;94;2;295-302

  • Host genetic variants and gene expression patterns associated with Epstein-Barr virus copy number in lymphoblastoid cell lines.

    Houldcroft CJ, Petrova V, Liu JZ, Frampton D, Anderson CA et al.

    PloS one 2014;9;10;e108384

  • Analysis of immune-related loci identifies 48 new susceptibility variants for multiple sclerosis.

    International Multiple Sclerosis Genetics Consortium (IMSGC), Beecham AH, Patsopoulos NA, Xifara DK, Davis MF et al.

    Nature genetics 2013;45;11;1353-60

  • Human SNP links differential outcomes in inflammatory and infectious disease to a FOXO3-regulated pathway.

    Lee JC, Espéli M, Anderson CA, Linterman MA, Pocock JM et al.

    Cell 2013;155;1;57-69

  • Dense genotyping of immune-related disease regions identifies nine new risk loci for primary sclerosing cholangitis.

    Liu JZ, Hov JR, Folseraas T, Ellinghaus E, Rushbrook SM et al.

    Nature genetics 2013;45;6;670-5

  • Host-microbe interactions have shaped the genetic architecture of inflammatory bowel disease.

    Jostins L, Ripke S, Weersma RK, Duerr RH, McGovern DP et al.

    Nature 2012;491;7422;119-24

  • Dense fine-mapping study identifies new susceptibility loci for primary biliary cirrhosis.

    Liu JZ, Almarri MA, Gaffney DJ, Mells GF, Jostins L et al.

    Nature genetics 2012;44;10;1137-41

  • optiCall: a robust genotype-calling algorithm for rare, low-frequency and common variants.

    Shah TS, Liu JZ, Floyd JA, Morris JA, Wirth N et al.

    Bioinformatics (Oxford, England) 2012;28;12;1598-603

  • Genome-wide association study identifies 12 new susceptibility loci for primary biliary cirrhosis.

    Mells GF, Floyd JA, Morley KI, Cordell HJ, Franklin CS et al.

    Nature genetics 2011;43;4;329-32

  • Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47.

    Anderson CA, Boucher G, Lees CW, Franke A, D'Amato M et al.

    Nature genetics 2011;43;3;246-52

  • Synthetic associations are unlikely to account for many common disease genome-wide association signals.

    Anderson CA, Soranzo N, Zeggini E and Barrett JC

    PLoS biology 2011;9;1;e1000580

  • Genome-wide association study identifies a locus at 7p15.2 associated with endometriosis.

    Painter JN, Anderson CA, Nyholt DR, Macgregor S, Lin J et al.

    Nature genetics 2011;43;1;51-4

  • Genome-wide meta-analysis increases to 71 the number of confirmed Crohn's disease susceptibility loci.

    Franke A, McGovern DP, Barrett JC, Wang K, Radford-Smith GL et al.

    Nature genetics 2010;42;12;1118-25

  • Data quality control in genetic case-control association studies.

    Anderson CA, Pettersson FH, Clarke GM, Cardon LR, Morris AP and Zondervan KT

    Nature protocols 2010;5;9;1564-73

  • Meta-analysis and imputation refines the association of 15q25 with smoking quantity.

    Liu JZ, Tozzi F, Waterworth DM, Pillai SG, Muglia P et al.

    Nature genetics 2010;42;5;436-40

  • Tryptophan depletion and formation of alpha-aminoadipic and gamma-glutamic semialdehydes in porcine burger patties with added phenolic-rich fruit extracts.

    Ganhão R, Morcuende D and Estévez M

    Journal of agricultural and food chemistry 2010;58;6;3541-8

  • Common variants at five new loci associated with early-onset inflammatory bowel disease.

    Imielinski M, Baldassano RN, Griffiths A, Russell RK, Annese V et al.

    Nature genetics 2009;41;12;1335-40

  • Genome-wide association study of ulcerative colitis identifies three new susceptibility loci, including the HNF4A region.

    UK IBD Genetics Consortium, Barrett JC, Lee JC, Lees CW, Prescott NJ et al.

    Nature genetics 2009;41;12;1330-4

  • Investigation of Crohn's disease risk loci in ulcerative colitis further defines their molecular relationship.

    Anderson CA, Massey DC, Barrett JC, Prescott NJ, Tremelling M et al.

    Gastroenterology 2009;136;2;523-9.e3

  • Genome-wide association defines more than 30 distinct susceptibility loci for Crohn's disease.

    Barrett JC, Hansoul S, Nicolae DL, Cho JH, Duerr RH et al.

    Nature genetics 2008;40;8;955-62

  • Evaluating the effects of imputation on the power, coverage, and cost efficiency of genome-wide SNP platforms.

    Anderson CA, Pettersson FH, Barrett JC, Zhuang JJ, Ragoussis J et al.

    American journal of human genetics 2008;83;1;112-9

  • Genetic determinants of ulcerative colitis include the ECM1 locus and five loci implicated in Crohn's disease.

    Fisher SA, Tremelling M, Anderson CA, Gwilliam R, Bumpstead S et al.

    Nature genetics 2008;40;6;710-2

  • Sequence variants in the autophagy gene IRGM and multiple other replicating loci contribute to Crohn's disease susceptibility.

    Parkes M, Barrett JC, Prescott NJ, Tremelling M, Anderson CA et al.

    Nature genetics 2007;39;7;830-2

Anderson, Carl
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