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Van Loo lab Cancer Genomics Laboratory : Publications Lab contentLab contentIn this section Overview Areas of research Publications Members Software Vacancies Zoom in of a ‘Circos plot’ showing genetic changes in cancer genomes. 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Biology (1)Modern pathology (1)Molecular Cancer (1)Molecular Oncology (1)Nature Methods (1)Nucleic Acids Research (1)Oncogene (1)PLoS Computational Biology (1)PLOS Genetics (1) Facet Journal Publications Displaying 21 - 40 of 152Last updated : 23 April 2024 02:30 Mutually exclusive genetic interactions and gene essentiality shape the genomic landscape of primary melanoma Authors (18) Sofia Birkeälv Mark Harland Larissa Satiko Alcântara Sekimoto Matsuyama Mamun Rashid Ishan Mehta Jonathan P Laye[...] Patricia A Possik Silvya Stuchi Maria Engler D Timothy Bishop Julia Newton-Bishop David J Adams Journal of Pathology Published 1 January 2023 Crick labsPeter Van LooFull details The architecture of clonal expansions in morphologically normal tissue from cancerous and non-cancerous prostates Authors (27) Claudia Buhigas Anne Y Warren Wing-Kit Leung Hayley C Whitaker Hayley J Luxton Steve Hawkins[...] Andy G Lynch Rosalind A Eeles Colin S Cooper David C Wedge Daniel S Brewer Molecular Cancer Published 22 September 2022 Crick labsPeter Van LooFull details A genetic model for central chondrosarcoma evolution correlates with patient outcome Authors (23) William Cross Iben LyskjærTom LesluyesSteven Hargreaves Anna-Christina Strobl Christopher Davies[...] Genomics England Research Consortium Paul Cool Nischalan Pillay Peter Van Loo Adrienne M Flanagan Genome Medicine Published 30 August 2022 Crick labsPeter Van LooFull details A pan-cancer compendium of chromosomal instability Authors (14) Ruben M Drews Barbara HernandoMaxime TarabichiKerstin HaaseTom Lesluyes Philip S Smith[...] Michael Schneider James D BrentonPeter Van Loo Geoff Macintyre Florian Markowetz Nature Published 30 June 2022 Crick labsPeter Van LooFull details Signatures of copy number alterations in human cancer Authors (24) Christopher D Steele Ammal Abbasi SM Ashiqul IslamAmy Bowes Azhar KhandekarKerstin Haase[...] Adrienne M FlanaganMaxime TarabichiPeter Van Loo Ludmil B Alexandrov Nischalan Pillay Nature Published 30 June 2022 Crick labsPeter Van LooFull details Estimation of tumor cell total mRNA expression in 15 cancer types predicts disease progression Authors (40) Shaolong Cao Jennifer R Wang Shuangxi Ji Peng Yang Yaoyi Dai Shuai Guo[...] Hongtu Zhu Alfonso UrbanucciJonas DemeulemeesterPeter Van Loo Wenyi Wang Nature Biotechnology Published 1 November 2022 Crick labsPeter Van LooCharles SwantonFull details Leveraging single-cell sequencing to unravel intratumour heterogeneity and tumour evolution in human cancers Authors (4)Amy BowesMaxime Tarabichi Nischalan PillayPeter Van Loo Journal of Pathology Published 1 July 2022 Crick labsPeter Van LooFull details Biallelic mutations in cancer genomes reveal local mutational determinants Authors (4)Jonas Demeulemeester Stefan C Dentro Moritz GerstungPeter Van Loo Nature Genetics Published 1 February 2022 Crick labsPeter Van LooFull details Whole-genome analysis of Nigerian patients with breast cancer reveals ethnic-driven somatic evolution and distinct genomic subtypes Authors (28) Naser Ansari-Pour Yonglan Zheng Toshio F Yoshimatsu Ayodele Sanni Mustapha Ajani Jean-Baptiste Reynier[...] Oladosu Ojengbede John Obafunwa Dezheng Huo David C Wedge Olufunmilayo I Olopade Nature Communications Published 26 November 2021 Crick labsPeter Van LooFull details Aberrant integration of Hepatitis B virus DNA promotes major restructuring of human hepatocellular carcinoma genome architecture Authors (43) Eva G ÁlvarezJonas Demeulemeester Paula OteroClemency Jolly Daniel García-Souto Ana Pequeño-Valtierra[...] Urtzi Garaigorta Peter J Campbell Hidewaki NakagawaPeter Van Loo Jose MC Tubio Nature Communications Published 25 November 2021 Crick labsPeter Van LooFull details DeCiFering the subclonal composition of tumors Authors (4)Haixi YanMaxime Tarabichi Nicholas McGranahanPeter Van Loo Cell systems Published 20 October 2021 Crick labsPeter Van LooFull details A pan-cancer landscape of somatic mutations in non-unique regions of the human genome Authors (6)Maxime TarabichiJonas DemeulemeesterAnnelien Verfaillie Adrienne M FlanaganPeter Van Loo Tomasz Konopka Nature Biotechnology Published 1 December 2021 Crick labs/ facilitiesPeter Van LooScientific computingFull details Chemotherapy induces canalization of cell state in childhood B-cell precursor acute lymphoblastic leukemia Authors (28) VA Turati JA Guerra-Assunção NE Potter R Gupta S Ecker A Daneviciute[...]Peter Van Loo SE Jacobsen M Greaves J Herrero T Enver Nature Cancer Published 1 August 2021 Crick labsPeter Van LooFull details E3 ubiquitin ligase HECTD2 mediates melanoma progression and immune evasion Authors (15)Eleonora OttinaVeera PanovaLaura DoglioAnastasiya Kazachenka Georgina CornishJoanna Kirkpatrick[...] Peter Van LooCharles SwantonJames Macrae Thomas TütingGeorge Kassiotis Oncogene Published 16 September 2021 Crick labs/ facilitiesPeter Van LooCharles SwantonJonathan StoyeGeorge KassiotisProteomicsMetabolomicsScientific computingLight MicroscopyFlow CytometryCell ServicesBiological Research FacilityFull details Allele-specific multi-sample copy number segmentation in ASCAT Authors (4) Edith M RossKerstin HaasePeter Van Loo Florian Markowetz Bioinformatics Published 1 July 2021 Crick labsPeter Van LooFull details An integrative analysis of the age-associated multi-omic landscape across cancers Authors (5) Kasit ChatsirisupachaiTom Lesluyes Luminita ParaoanPeter Van Loo João Pedro de Magalhães Nature Communications Published 20 April 2021 Crick labsPeter Van LooFull details Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes Authors (121) Stefan C Dentro Ignaty Leshchiner Kerstin HaaseMaxime Tarabichi Jeff Wintersinger Amit G Deshwar[...] Paul T Spellman David C Wedge Peter Van Loo PCAWG Evolution and Heterogeneity Working Group PCAWG Consortium Cell Published 15 April 2021 Crick labs/ facilitiesPeter Van LooCharles SwantonScientific computingFull details Promises and challenges of adoptive T-cell therapies for solid tumours Authors (21) Matteo Morotti Ashwag Albukhari Abdulkhaliq Alsaadi Mara Artibani James D Brenton Stuart M Curbishley[...] Helen White Nina Wietek David N Church David C Wedge Ahmed A Ahmed British Journal of Cancer Published 25 May 2021 Crick labsPeter Van LooFull details Breast tumours maintain a reservoir of subclonal diversity during expansion Authors (27) Darlan C Minussi Michael D Nicholson Hanghui Ye Alexander Davis Kaile WangToby Baker[...] Banu Arun Funda Meric-BernstamPeter Van Loo Franziska Michor Nicholas E Navin Nature Published 8 April 2021 Crick labsPeter Van LooFull details Common clonal origin of conventional T cells and induced regulatory T cells in breast cancer patients Authors (25) Maria Xydia Raheleh Rahbari Eliana Ruggiero Iain MacaulayMaxime Tarabichi Robert Lohmayer[...] Manfred Schmidt Christof von Kalle Florian Schütz Thierry Voet Philipp Beckhove Nature Communications Published 18 February 2021 Crick labsPeter Van LooFull details 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Mutually exclusive genetic interactions and gene essentiality shape the genomic landscape of primary melanoma Authors (18) Sofia Birkeälv Mark Harland Larissa Satiko Alcântara Sekimoto Matsuyama Mamun Rashid Ishan Mehta Jonathan P Laye[...] Patricia A Possik Silvya Stuchi Maria Engler D Timothy Bishop Julia Newton-Bishop David J Adams Journal of Pathology Published 1 January 2023 Crick labsPeter Van LooFull details
The architecture of clonal expansions in morphologically normal tissue from cancerous and non-cancerous prostates Authors (27) Claudia Buhigas Anne Y Warren Wing-Kit Leung Hayley C Whitaker Hayley J Luxton Steve Hawkins[...] Andy G Lynch Rosalind A Eeles Colin S Cooper David C Wedge Daniel S Brewer Molecular Cancer Published 22 September 2022 Crick labsPeter Van LooFull details
A genetic model for central chondrosarcoma evolution correlates with patient outcome Authors (23) William Cross Iben LyskjærTom LesluyesSteven Hargreaves Anna-Christina Strobl Christopher Davies[...] Genomics England Research Consortium Paul Cool Nischalan Pillay Peter Van Loo Adrienne M Flanagan Genome Medicine Published 30 August 2022 Crick labsPeter Van LooFull details
A pan-cancer compendium of chromosomal instability Authors (14) Ruben M Drews Barbara HernandoMaxime TarabichiKerstin HaaseTom Lesluyes Philip S Smith[...] Michael Schneider James D BrentonPeter Van Loo Geoff Macintyre Florian Markowetz Nature Published 30 June 2022 Crick labsPeter Van LooFull details
Signatures of copy number alterations in human cancer Authors (24) Christopher D Steele Ammal Abbasi SM Ashiqul IslamAmy Bowes Azhar KhandekarKerstin Haase[...] Adrienne M FlanaganMaxime TarabichiPeter Van Loo Ludmil B Alexandrov Nischalan Pillay Nature Published 30 June 2022 Crick labsPeter Van LooFull details
Estimation of tumor cell total mRNA expression in 15 cancer types predicts disease progression Authors (40) Shaolong Cao Jennifer R Wang Shuangxi Ji Peng Yang Yaoyi Dai Shuai Guo[...] Hongtu Zhu Alfonso UrbanucciJonas DemeulemeesterPeter Van Loo Wenyi Wang Nature Biotechnology Published 1 November 2022 Crick labsPeter Van LooCharles SwantonFull details
Leveraging single-cell sequencing to unravel intratumour heterogeneity and tumour evolution in human cancers Authors (4)Amy BowesMaxime Tarabichi Nischalan PillayPeter Van Loo Journal of Pathology Published 1 July 2022 Crick labsPeter Van LooFull details
Biallelic mutations in cancer genomes reveal local mutational determinants Authors (4)Jonas Demeulemeester Stefan C Dentro Moritz GerstungPeter Van Loo Nature Genetics Published 1 February 2022 Crick labsPeter Van LooFull details
Whole-genome analysis of Nigerian patients with breast cancer reveals ethnic-driven somatic evolution and distinct genomic subtypes Authors (28) Naser Ansari-Pour Yonglan Zheng Toshio F Yoshimatsu Ayodele Sanni Mustapha Ajani Jean-Baptiste Reynier[...] Oladosu Ojengbede John Obafunwa Dezheng Huo David C Wedge Olufunmilayo I Olopade Nature Communications Published 26 November 2021 Crick labsPeter Van LooFull details
Aberrant integration of Hepatitis B virus DNA promotes major restructuring of human hepatocellular carcinoma genome architecture Authors (43) Eva G ÁlvarezJonas Demeulemeester Paula OteroClemency Jolly Daniel García-Souto Ana Pequeño-Valtierra[...] Urtzi Garaigorta Peter J Campbell Hidewaki NakagawaPeter Van Loo Jose MC Tubio Nature Communications Published 25 November 2021 Crick labsPeter Van LooFull details
DeCiFering the subclonal composition of tumors Authors (4)Haixi YanMaxime Tarabichi Nicholas McGranahanPeter Van Loo Cell systems Published 20 October 2021 Crick labsPeter Van LooFull details
A pan-cancer landscape of somatic mutations in non-unique regions of the human genome Authors (6)Maxime TarabichiJonas DemeulemeesterAnnelien Verfaillie Adrienne M FlanaganPeter Van Loo Tomasz Konopka Nature Biotechnology Published 1 December 2021 Crick labs/ facilitiesPeter Van LooScientific computingFull details
Chemotherapy induces canalization of cell state in childhood B-cell precursor acute lymphoblastic leukemia Authors (28) VA Turati JA Guerra-Assunção NE Potter R Gupta S Ecker A Daneviciute[...]Peter Van Loo SE Jacobsen M Greaves J Herrero T Enver Nature Cancer Published 1 August 2021 Crick labsPeter Van LooFull details
E3 ubiquitin ligase HECTD2 mediates melanoma progression and immune evasion Authors (15)Eleonora OttinaVeera PanovaLaura DoglioAnastasiya Kazachenka Georgina CornishJoanna Kirkpatrick[...] Peter Van LooCharles SwantonJames Macrae Thomas TütingGeorge Kassiotis Oncogene Published 16 September 2021 Crick labs/ facilitiesPeter Van LooCharles SwantonJonathan StoyeGeorge KassiotisProteomicsMetabolomicsScientific computingLight MicroscopyFlow CytometryCell ServicesBiological Research FacilityFull details
Allele-specific multi-sample copy number segmentation in ASCAT Authors (4) Edith M RossKerstin HaasePeter Van Loo Florian Markowetz Bioinformatics Published 1 July 2021 Crick labsPeter Van LooFull details
An integrative analysis of the age-associated multi-omic landscape across cancers Authors (5) Kasit ChatsirisupachaiTom Lesluyes Luminita ParaoanPeter Van Loo João Pedro de Magalhães Nature Communications Published 20 April 2021 Crick labsPeter Van LooFull details
Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes Authors (121) Stefan C Dentro Ignaty Leshchiner Kerstin HaaseMaxime Tarabichi Jeff Wintersinger Amit G Deshwar[...] Paul T Spellman David C Wedge Peter Van Loo PCAWG Evolution and Heterogeneity Working Group PCAWG Consortium Cell Published 15 April 2021 Crick labs/ facilitiesPeter Van LooCharles SwantonScientific computingFull details
Promises and challenges of adoptive T-cell therapies for solid tumours Authors (21) Matteo Morotti Ashwag Albukhari Abdulkhaliq Alsaadi Mara Artibani James D Brenton Stuart M Curbishley[...] Helen White Nina Wietek David N Church David C Wedge Ahmed A Ahmed British Journal of Cancer Published 25 May 2021 Crick labsPeter Van LooFull details
Breast tumours maintain a reservoir of subclonal diversity during expansion Authors (27) Darlan C Minussi Michael D Nicholson Hanghui Ye Alexander Davis Kaile WangToby Baker[...] Banu Arun Funda Meric-BernstamPeter Van Loo Franziska Michor Nicholas E Navin Nature Published 8 April 2021 Crick labsPeter Van LooFull details
Common clonal origin of conventional T cells and induced regulatory T cells in breast cancer patients Authors (25) Maria Xydia Raheleh Rahbari Eliana Ruggiero Iain MacaulayMaxime Tarabichi Robert Lohmayer[...] Manfred Schmidt Christof von Kalle Florian Schütz Thierry Voet Philipp Beckhove Nature Communications Published 18 February 2021 Crick labsPeter Van LooFull details