Summary
Dr Alessia David is a Lecturer in Bioinformatics and Data Intensive Biology/Clinical Research Fellow in the Centre for Integrative System Biology and Bioinformatics at Imperial College London and a Honorary Consultant Physician at Imperial College NHS Trust. She graduated with honours in Medicine from the University of Rome La Sapienza and completed her specialist training in Endocrinology and Metabolic Diseases. She holds a PhD in Molecular Endocrinology from the William Harvey Research Institute, Queen Mary University London and an MSc in Bioinformatics and System Biology from Imperial College London. In 2013, she was awarded an MRC fellowship in Biomedical Informatics. After completing her fellowship, she continued her research work as a Clinical Research Fellow at Imperial College London. Over the last 10 years, she has been engaged in identifying the genetic and molecular mechanisms contributing to human diseases by using a range of mathematical and bioinformatics approaches and has published extensively on a wide range of genetic conditions. She has received funding from the MRC, Wellcome Trust and Imperial Health Charity.
Dr Alessia David and Prof Michael Sternberg co-developed the following resources for variant prediction:
Missense3D - an algorithm to predict the structural changes introduced by an amino acid substitution. It is applicable for the analysis of both experimental and predicted 3D protein structures.
Missense3D-DB - a database of precomputed structural predictions for 4 million human missense variants
PhyreRisk - a dynamic web application developed to enable the exploration and mapping of genetic variants onto experimental and predicted structures of proteins and protein complexes
Selected Publications
Journal Articles
Lagou V, Jiang L, Ulrich A, et al.Lagou V, Jiang L, Ulrich A, Zudina L, González KSG, Balkhiyarova Z, Faggian A, Maina JG, Chen S, Todorov PV, Sharapov S, David A, Marullo L, Mägi R, Rujan R-M, Ahlqvist E, Thorleifsson G, Gao Η, Εvangelou Ε, Benyamin B, Scott RA, Isaacs A, Zhao JH, Willems SM, Johnson T, Gieger C, Grallert H, Meisinger C, Müller-Nurasyid M, Strawbridge RJ, Goel A, Rybin D, Albrecht E, Jackson AU, Stringham HM, Corrêa IR, Farber-Eger E, Steinthorsdottir V, Uitterlinden AG, Munroe PB, Brown MJ, Schmidberger J, Holmen O, Thorand B, Hveem K, Wilsgaard T, Mohlke KL, Wang Z, GWA-PA Consortium, Shmeliov A, den Hoed M, Loos RJF, Kratzer W, Haenle M, Koenig W, Boehm BO, Tan TM, Tomas A, Salem V, Barroso I, Tuomilehto J, Boehnke M, Florez JC, Hamsten A, Watkins H, Njølstad I, Wichmann H-E, Caulfield MJ, Khaw K-T, van Duijn CM, Hofman A, Wareham NJ, Langenberg C, Whitfield JB, Martin NG, Montgomery G, Scapoli C, Tzoulaki I, Elliott P, Thorsteinsdottir U, Stefansson K, Brittain EL, McCarthy MI, Froguel P, Sexton PM, Wootten D, Groop L, Dupuis J, Meigs JB, Deganutti G, Demirkan A, Pers TH, Reynolds CA, Aulchenko YS, Kaakinen MA, Jones B, Prokopenko I, Meta-Analysis of Glucose and Insulin-Related Traits Consortium (MAGIC) close, 2023, GWAS of random glucose in 476,326 individuals provide insights into diabetes pathophysiology, complications and treatment stratification, Nature Genetics, Vol:55, ISSN:1061-4036, Pages:1448-1461
Canton APM, Tinano FR, Guasti L, et al.Canton APM, Tinano FR, Guasti L, Montenegro LR, Ryan F, Shears D, de Melo ME, Gomes LG, Piana MP, Brauner R, Espino-Aguilar R, Escribano-Muñoz A, Paganoni A, Read JE, Korbonits M, Seraphim CE, Costa SS, Krepischi AC, Jorge AAL, David A, Kaisinger LR, Ong KK, Perry JRB, Abreu AP, Kaiser UB, Argente J, Mendonca BB, Brito VN, Howard SR, Latronico AC close, 2023, Rare variants in the MECP2 gene in girls with central precocious puberty: a translational cohort study, The Lancet Diabetes & Endocrinology, Vol:11, ISSN:2213-8587, Pages:545-554
Pennica C, Sternberg M, Islam S, et al.Pennica C, Sternberg M, Islam S, David A close, 2023, Missense3D-PPI: a web resource to predict the impact of missense variants at protein interfaces using 3D structural data, Journal of Molecular Biology, Vol:435, ISSN:0022-2836, Pages:1-9
Wu X, Azizan EAB, Goodchild E, et al.Wu X, Azizan EAB, Goodchild E, Garg S, Hagiyama M, Cabrera CP, Fernandes-Rosa FL, Boulkroun S, Kuan JL, Tiang Z, David A, Murakami M, Mein CA, Wozniak E, Zhao W, Marker A, Buss F, Saleeb RS, Salsbury J, Tezuka Y, Satoh F, Oki K, Udager AM, Cohen DL, Wachtel H, King PJ, Drake WM, Gurnell M, Ceral J, Ryska A, Mustangin M, Wong YP, Tan GC, Solar M, Reincke M, Rainey WE, Foo RS, Takaoka Y, Murray SA, Zennaro M-C, Beuschlein F, Ito A, Brown MJ close, 2023, Somatic mutations of CADM1 in aldosterone-producing adenomas and gap junction-dependent regulation of aldosterone production, Nature Genetics, Vol:55, ISSN:1061-4036, Pages:1009-1021
David A, Sternberg MJE, 2023, Protein structure-based evaluation of missense variants: Resources, challenges and future directions., Current Opinion in Structural Biology, Vol:80, ISSN:0959-440X, Pages:1-8
Pennica C, Hanna G, Islam SA, et al.Pennica C, Hanna G, Islam SA, Sternberg MJE, David A close, 2023, A new web resource to predict the impact of missense variants at protein interfaces using 3D structural data: Missense3D-PPI
David A, Parkinson N, Peacock TP, et al.David A, Parkinson N, Peacock TP, Pairo-Castineira E, Khanna T, Cobat A, Tenesa A, Sancho-Shimizu V, Casanova J-L, Abel L, Barclay WS, Baillie JK, Sternberg MJE close, 2022, A common TMPRSS2 variant has a protective effect against severe COVID-19, Current Research in Translational Medicine, Vol:70, ISSN:2452-3186
David A, Islam S, Tankhilevich E, et al.David A, Islam S, Tankhilevich E, JE Sternberg M close, 2021, The AlphaFold database of protein structures: a biologist’s guide, Journal of Molecular Biology, Vol:434, ISSN:0022-2836, Pages:167336-167336
David A, Khanna T, Hanna G, et al.David A, Khanna T, Hanna G, Sternberg M close, 2021, Missense3D-DB web catalogue: an atom-based analysis and repository of 4M human protein-coding genetic variants, Human Genetics, Vol:140, ISSN:0340-6717, Pages:805-812
Zhang Q, Bastard P, Liu Z, et al.Zhang Q, Bastard P, Liu Z, Le Pen J, Moncada-Velez M, Chen J, Ogishi M, Sabli IKD, Hodeib S, Korol C, Rosain J, Bilguvar K, Ye J, Bolze A, Bigio B, Yang R, Arias AA, Zhou Q, Zhang Y, Onodi F, Korniotis S, Karpf L, Philippot Q, Chbihi M, Bonnet-Madin L, Dorgham K, Smith N, Schneider WM, Razooky BS, Hoffmann H-H, Michailidis E, Moens L, Han JE, Lorenzo L, Bizien L, Meade P, Neehus A-L, Ugurbil AC, Corneau A, Kerner G, Zhang P, Rapaport F, Seeleuthner Y, Manry J, Masson C, Schmitt Y, Schlüter A, Le Voyer T, Khan T, Li J, Fellay J, Roussel L, Shahrooei M, Alosaimi MF, Mansouri D, Al-Saud H, Al-Mulla F, Almourfi F, Al-Muhsen SZ, Alsohime F, Al Turki S, Hasanato R, van de Beek D, Biondi A, Bettini LR, D'Angio M, Bonfanti P, Imberti L, Sottini A, Paghera S, Quiros-Roldan E, Rossi C, Oler AJ, Tompkins MF, Alba C, Vandernoot I, Goffard J-C, Smits G, Migeotte I, Haerynck F, Soler-Palacin P, Martin-Nalda A, Colobran R, Morange P-E, Keles S, Çölkesen F, Ozcelik T, Yasar KK, Senoglu S, Karabela ŞN, Gallego CR, Novelli G, Hraiech S, Tandjaoui-Lambiotte Y, Duval X, Laouénan C, COVID-STORM Clinicians, COVID Clinicians, Imagine COVID Group, French COVID Cohort Study Group, CoV-Contact Cohort, Amsterdam UMC Covid-19, Biobank, COVID Human Genetic Effort, NIAID-USUHS, TAGC COVID Immunity Group, Snow AL, Dalgard CL, Milner J, Vinh DC, Mogensen TH, Marr N, Spaan AN, Boisson B, Boisson-Dupuis S, Bustamante J, Puel A, Ciancanelli M, Meyts I, Maniatis T, Soumelis V, Amara A, Nussenzweig M, García-Sastre A, Krammer F, Pujol A, Duffy D, Lifton R, Zhang S-Y, Gorochov G, Béziat V, Jouanguy E, Sancho-Shimizu V, Rice CM, Abel L, Notarangelo LD, Cobat A, Su HC, Casanova J-L close, 2020, Inborn errors of type I IFN immunity in patients with life-threatening COVID-19, Science, Vol:370, ISSN:0036-8075, Pages:1-16
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