Group publications

 

Publikationer rss feed

2017
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Fast and accurate mutation detection in whole genome sequences of multiple isogenic samples with IsoMut

Pipek, Orsolya ; Ribli, Dezső ; Molnar, Janos ; Poti, Adam ; Krzystanek, Marcin ; Bodor, András ; Tusnady, Gabor E. ; Szallasi, Zoltan Imre ; Csabai, Istvan ; Szüts, D.
in journal: B M C Bioinformatics (ISSN: 1471-2105) (DOI: http://dx.doi.org/10.1186/s12859-017-1492-4), vol: 18, issue: 1, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1186/s12859-017-1492-4

 

Evaluating the significance of density, localization, and PD-1/PD-L1 immunopositivity of mononuclear cells in the clinical course of lung adenocarcinoma patients with brain metastasis

Téglási, Vanda ; Reiniger, Lilla ; Fabian, Katalin ; Pipek, Orsolya ; Csala, Irén ; Bagó, Attila G. ; Várallyai, Péter ; Vízkeleti, Laura ; Rojkó, Lívia ; Tímár, József ; Dome, Balazs ; Szallasi, Zoltan Imre ; Swanton, Charles ; Moldvay, Judit
in journal: Neuro-Oncology (ISSN: 1522-8517) (DOI: http://dx.doi.org/10.1093/neuonc/now309), vol: 19, issue: 8, pages: 1058-1067, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1093/neuonc/now309

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Loss of BRCA1 or BRCA2 markedly increases the rate of base substitution mutagenesis and has distinct effects on genomic deletions

Zamborszky, J. ; Szikriszt, B. ; Gervai, J. Z. ; Pipek, O. ; Poti, A. ; Krzystanek, Marcin ; Ribli, D. ; Szalai-Gindl, J. M. ; Csabai, I. ; Szallasi, Zoltan Imre ; Swanton, C. ; Richardson, A L ; Szuets, D.
in journal: Oncogene (ISSN: 0950-9232) (DOI: http://dx.doi.org/10.1038/onc.2016.243), vol: 36, issue: 6, pages: 746-755, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1038/onc.2016.243

 

MuPeXI: prediction of neo-epitopes from tumor sequencing data

Bjerregaard, Anne-Mette ; Nielsen, Morten ; Hadrup, Sine Reker ; Szallasi, Zoltan Imre ; Eklund, Aron Charles
in journal: Cancer Immunology, Immunotherapy (ISSN: 0340-7004) (DOI: http://dx.doi.org/10.1007/s00262-017-2001-3), vol: 66, issue: 9, pages: 1123–1130, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1007/s00262-017-2001-3

 

Tracking the Evolution of Non-Small-Cell Lung Cancer

Jamal-Hanjani, Mariam ; Wilson, Gareth A. ; McGranahan, Nicholas ; Birkbak, Nicolai Juul ; Watkins, Thomas B K ; Veeriah, Selvaraju ; Shafi, Seema ; Johnson, Diana H ; Mitter, Richard ; Rosenthal, Rachel ; Salm, Max ; Horswell, Stuart ; Escudero, Mickael ; Matthews, Nik ; Rowan, Andrew ; Chambers, Tim ; Moore, David A ; Turajlic, Samra ; Xu, Hang ; Lee, Siow-Ming ; Forster, Martin D ; Ahmad, Tanya ; Hiley, Crispin T ; Abbosh, Christopher ; Falzon, Mary ; Borg, Elaine ; Marafioti, Teresa ; Lawrence, David ; Hayward, Martin ; Kolvekar, Shyam ; Panagiotopoulos, Nikolaos ; Janes, Sam M ; Thakrar, Ricky ; Ahmed, Asia ; Blackhall, Fiona ; Summers, Yvonne ; Shah, Rajesh ; Joseph, Leena ; Quinn, Anne M ; Crosbie, Phil A ; Naidu, Babu ; Middleton, Gary ; Langman, Gerald ; Trotter, Simon ; Nicolson, Marianne ; Remmen, Hardy ; Kerr, Keith ; Chetty, Mahendran ; Gomersall, Lesley ; Fennell, Dean A ; Nakas, Apostolos ; Rathinam, Sridhar ; Anand, Girija ; Khan, Sajid ; Russell, Peter ; Ezhil, Veni ; Ismail, Babikir ; Irvin-Sellers, Melanie ; Prakash, Vineet ; Lester, Jason F ; Kornaszewska, Malgorzata ; Attanoos, Richard ; Adams, Haydn ; Davies, Helen ; Dentro, Stefan ; Taniere, Philippe ; O'Sullivan, Brendan ; Lowe, Helen L ; Hartley, John A ; Iles, Natasha ; Bell, Harriet ; Ngai, Yenting ; Shaw, Jacqui A. ; Herrero, Javier ; Szallasi, Zoltan Imre ; Schwarz, Roland F. ; Stewart, Aengus ; Quezada, Sergio A. ; Le Quesne, John ; Van Loo, Peter ; Dive, Caroline ; Hackshaw, Allan ; Swanton, Charles
in journal: New England Journal of Medicine (ISSN: 0028-4793) (DOI: http://dx.doi.org/10.1056/NEJMoa1616288), 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1056/NEJMoa1616288

 

Phylogenetic ctDNA analysis depicts early stage lung cancer evolution

Abbosh, Christopher ; Birkbak, Nicolai Juul ; Wilson, Gareth A. ; Jamal-Hanjani, Mariam ; Constantin, Tudor ; Salari, Raheleh ; Quesne, John Le ; Moore, David A. ; Veeriah, Selvaraju ; Rosenthal, Rachel ; Marafioti, Teresa ; Kirkizlar, Eser ; Watkins, Thomas B. K. ; McGranahan, Nicholas ; Ward, Sophia ; Martinson, Luke ; Riley, Joan ; Fraioli, Francesco ; Bakir, Maise Al ; Grönroos, Eva ; Zambrana, Francisco ; Endozo, Raymondo ; Bi, Wenya Linda ; Fennessy, Fiona M. ; Sponer, Nicole ; Johnson, Diana H. ; Laycock, Joanne ; Shafi, Seema ; Czyzewska-Khan, Justyna ; Rowan, Andrew ; Chambers, Tim ; Matthews, Nik ; Turajlic, Samra ; Hiley, Crispin T. ; Lee, Siow-Ming ; Forster, Martin D. ; Ahmad, Tanya ; Falzon, Mary ; Borg, Elaine ; Lawrence, David ; Hayward, Martin ; Kolvekar, Shyam ; Panagiotopoulos, Nikolaos ; Janes, Sam M. ; Thakrar, Ricky ; Ahmed, Asia ; Blackhall, Fiona ; Summers, Yvonne ; Hafez, Dina ; Naik, Ashwini ; Ganguly, Apratim ; Kareht, Stephanie ; Shah, Rajesh ; Joseph, Leena ; Quinn, Anne Marie ; Crosbie, Phil A. ; Naidu, Babu ; Middleton, Gary ; Langman, Gerald ; Trotter, Simon ; Nicolson, Marianne ; Remmen, Hardy ; Kerr, Keith ; Chetty, Mahendran ; Gomersall, Lesley ; Fennell, Dean A. ; Nakas, Apostolos ; Rathinam, Sridhar ; Anand, Girija ; Khan, Sajid ; Russell, Peter ; Ezhil, Veni ; Ismail, Babikir ; Irvin-Sellers, Melanie ; Prakash, Vineet ; Lester, Jason F. ; Kornaszewska, Malgorzata ; Attanoos, Richard ; Adams, Haydn ; Davies, Helen ; Oukrif, Dahmane ; Akarca, Ayse U. ; Hartley, John A. ; Lowe, Helen L ; Lock, Sara ; Iles, Natasha ; Bell, Harriet ; Ngai, Yenting ; Elgar, Greg ; Szallasi, Zoltan Imre ; Schwarz, Roland F. ; Herrero, Javier ; Stewart, Aengus ; Quezada, Sergio A. ; Van Loo, Peter ; Dive, Caroline ; Lin, C. Jimmy ; Rabinowitz, Matthew ; Aerts, Hugo J.W.L. ; Hackshaw, Allan ; Shaw, Jacqui A. ; Zimmermann, Bernhard G. ; Swanton, Charles
in journal: Nature (ISSN: 0028-0836) (DOI: http://dx.doi.org/10.1038/nature22364), vol: 545, pages: 446-451, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1038/nature22364

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Quantification of within-sample genetic heterogeneity from SNP-array data

Martinez, Pierre ; Kimberley, Christopher ; Birkbak, Nicolai Juul ; Marquard, Andrea Marion ; Szallasi, Zoltan Imre ; A. Graham, Trevor
in journal: Scientific Reports (ISSN: 2045-2322) (DOI: http://dx.doi.org/10.1038/s41598-017-03496-0), vol: 7, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1038/s41598-017-03496-0

 

Renal Impairment Hampers Bisphosphonate Treatment in a Quarter of Lung Cancer Patients with Bone Metastasis

Fabian, Katalin ; Puskás, Rita ; Kakuk, Tímea ; Prés, László ; Fejes, Dorottya ; Szegedi, Zsolt ; Rojkó, Lívia ; Szallasi, Zoltan Imre ; Döme, Balázs ; Pipek, Orsolya ; Moldvay, Judit
in journal: Basic & Clinical Pharmacology & Toxicology (ISSN: 1742-7835) (DOI: http://dx.doi.org/10.1111/bcpt.12876), 2017

Type: Journal article (Peer reviewed)

Status: Accepted/In press     |    Year: 2017     |    DOI: http://dx.doi.org/10.1111/bcpt.12876

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Intratumoural evolutionary landscape of high-risk prostate cancer: The PROGENY study of genomic and immune parameters

Linch, M. ; Goh, G. ; Hiley, C. ; Shanmugabavan, Y. ; McGranahan, N. ; Rowan, A. ; Wong, Y. N.S. ; King, H. ; Furness, A. ; Freeman, A. ; Linares, J. ; Akarca, A. ; Herrero, J. ; Rosenthal, R. ; Harder, N. ; Schmidt, G. ; Wilson, G. A. ; Birkbak, N. J. ; Mitter, R. ; Dentro, S. ; Cathcart, P. ; Arya, M. ; Johnston, E. ; Scott, R. ; Hung, M. ; Emberton, M. ; Attard, G. ; Szallasi, Zoltan Imre ; Punwani, S. ; Quezada, S. A. ; Marafioti, T. ; Gerlinger, M. ; Ahmed, Hashim U. ; Swanton, Charles
in journal: Annals of Oncology (ISSN: 0923-7534) (DOI: http://dx.doi.org/10.1093/annonc/mdx355), vol: 28, issue: 10, pages: 2472-2480, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.1093/annonc/mdx355

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An Analysis of Natural T Cell Responses to Predicted Tumor Neoepitopes

Bjerregaard, Anne-Mette ; Nielsen, Morten ; Jurtz, Vanessa Isabell ; Barra, Carolina M. ; Hadrup, Sine Reker ; Szallasi, Zoltan Imre ; Eklund, Aron Charles
in journal: Frontiers in Immunology (ISSN: 1664-3224) (DOI: http://dx.doi.org/10.3389/fimmu.2017.01566), vol: 8, 2017

Type: Journal article (Peer reviewed)

Status: Published     |    Year: 2017     |    DOI: http://dx.doi.org/10.3389/fimmu.2017.01566


http://www.bioinformatics.dtu.dk/english/research_new/health-informatics/cancer-genomics/gruppens-publikationer
18 DECEMBER 2017