Author details

Full Name

Marc Zapatka

Affiliation

ORCID

Career Start Year

2001

Papers

108

H Index

Expertise

CM4AI Collaborator

PMID	Paper Title	Journal Title	Published Year
37653401	scSNPdemux: a sensitive demultiplexing pipeline using single nucleotide polymorphisms for improved pooled single-cell RNA sequencing analysis.	BMC Bioinformatics	2023
34417556	Longitudinal analyses of CLL in mice identify leukemia-related clonal changes including a Myc gain predicting poor outcome in patients.	Leukemia	2022
36083597	Exploration of whole genome and transcriptome sequencing data lacks evidence for oncogenic viral elements to drive the pathogenesis of T-cell prolymphocytic leukemia.	Leuk Lymphoma	2022
35377939	Secondary resistance to idelalisib is characterized by upregulation of IGF1R rather than by MAPK/ERK pathway mutations.	Blood	2022
36266272	Proteogenomics refines the molecular classification of chronic lymphocytic leukemia.	Nat Commun	2022
35918329	Comprehensive genomic and epigenomic analysis in cancer of unknown primary guides molecularly-informed therapies despite heterogeneity.	Nat Commun	2022
36423362	COGNITION: a prospective precision oncology trial for patients with early breast cancer at high risk following neoadjuvant chemotherapy.	ESMO Open	2022
33691380	Clonal evolution in chronic lymphocytic leukemia is scant in relapsed but accelerated in refractory cases after chemo(immune) therapy.	Haematologica	2022
35013316	Association of mutation signature effectuating processes with mutation hotspots in driver genes and non-coding regions.	Nat Commun	2022
34879221	Interleukin-10 receptor signaling promotes the maintenance of a PD-1<sup>int</sup> TCF-1<sup>+</sup> CD8<sup>+</sup> TÂ cell population that sustains anti-tumor immunity.	Immunity	2021
33953289	Mutational mechanisms shaping the coding and noncoding genome of germinal center derived B-cell lymphomas.	Leukemia	2021
33731860	The age of adult pilocytic astrocytoma cells.	Oncogene	2021
34049392	Carbon ion radiotherapy eradicates medulloblastomas with chromothripsis in an orthotopic Li-Fraumeni patient-derived mouse model.	Neuro Oncol	2021
34036222	CATCH: A Prospective Precision Oncology Trial in Metastatic Breast Cancer.	JCO Precis Oncol	2021
32930393	Unraveling most abundant mutational signatures in head and neck cancer.	International Journal of Cancer	2021
32734664	A versatile system to introduce clusters of genomic double-strand breaks in large cell populations.	Genes Chromosomes Cancer	2021
31519123	CD8<sup>+</sup> T-cells of CLL-bearing mice acquire a transcriptional program of T-cell activation and exhaustion.	Leuk Lymphoma	2020
32052037	Pilocytic astrocytoma demethylation and transcriptional landscapes link bZIP transcription factors to immune response.	Neuro Oncol	2020
31768671	Molecular subgrouping of primary pineal parenchymal tumors reveals distinct subtypes correlated with clinical parameters and genetic alterations.	Acta Neuropathol	2020
32385320	The landscape of chromothripsis across adult cancer types.	Nat Commun	2020
32818467	IL4I1 Is a Metabolic Immune Checkpoint that Activates the AHR and Promotes Tumor Progression.	Cell	2020
32973084	Chromothripsis in Human Breast Cancer.	Cancer Res	2020
30943283	DECIPHER pooled shRNA library screen identifies PP2A and FGFR signaling as potential therapeutic targets for diffuse intrinsic pontine gliomas.	Neuro Oncol	2019
31708418	Identification and Analyses of Extra-Cranial and Cranial Rhabdoid Tumor Molecular Subgroups Reveal Tumors with Cytotoxic T Cell Infiltration.	Cell Rep	2019
30548945	MiR-16-5p is frequently down-regulated in astrocytic gliomas and modulates glioma cell proliferation, apoptosis and response to cytotoxic therapy.	Neuropathol Appl Neurobiol	2019
30595504	Comprehensive Analysis of Chromatin States in Atypical Teratoid/Rhabdoid Tumor Identifies Diverging Roles for SWI/SNF and Polycomb in Gene Regulation.	Cancer Cell	2019
30926794	Genomic and transcriptomic changes complement each other in the pathogenesis of sporadic Burkitt lymphoma.	Nat Commun	2019
31019444	Mismatch Repair Deficiency Drives Durable Complete Remission by Targeting Programmed Death Receptor 1 in a Metastatic Luminal Breast Cancer Patient.	Breast Care (Basel)	2019
31118277	Linking aberrant chromatin features in chronic lymphocytic leukemia to transcription factor networks.	Mol Syst Biol	2019
31000522	MDM4 Is Targeted by 1q Gain and Drives Disease in Burkitt Lymphoma.	Cancer Res	2019
29539639	DNA methylation-based classification of central nervous system tumours.	Nature	2018
30504793	A novel cloning strategy for one-step assembly of multiplex CRISPR vectors.	Sci Rep	2018
30420702	Defective DNA damage repair leads to frequent catastrophic genomic events in murine and human tumors.	Nat Commun	2018
29489754	The landscape of genomic alterations across childhood cancers.	Nature	2018
29227286	Drug-perturbation-based stratification of blood cancer.	J Clin Invest	2018
29093097	Analysis of Epstein-Barr Virus Genomes and Expression Profiles in Gastric Adenocarcinoma.	J Virol	2018
29258295	Therapeutic targeting of ependymoma as informed by oncogenic enhancer profiling.	Nature	2018
29703776	Correction for Borozan et al., "Analysis of Epstein-Barr Virus Genomes and Expression Profiles in Gastric Adenocarcinoma".	J Virol	2018
29321523	Integrative genomic and transcriptomic analysis of leiomyosarcoma.	Nat Commun	2018
28196983	Genomic profiling of Acute lymphoblastic leukemia in ataxia telangiectasia patients reveals tight link between ATM mutations and chromothripsis.	Leukemia	2017
28771672	MED12 mutations and NOTCH signalling in chronic lymphocytic leukaemia.	British Journal of Haematology	2017
28726821	The whole-genome landscape of medulloblastoma subtypes.	Nature	2017
28754746	Tumor-derived exosomes modulate PD-L1 expression in monocytes.	Sci Immunol	2017
28319069	The branched-chain amino acid transaminase 1 sustains growth of antiestrogen-resistant and ERÎ±-negative breast cancer.	Oncogene	2017
29033976	confFuse: High-Confidence Fusion Gene Detection across Tumor Entities.	Front Genet	2017
27863482	In silico SNP analysis of the breast cancer antigen NY-BR-1.	BMC Cancer	2016
26923874	Atypical Teratoid/Rhabdoid Tumors Are Comprised of Three Epigenetic Subgroups with Distinct Enhancer Landscapes.	Cancer Cell	2016
26780610	DNA methylation dynamics during B cell maturation underlie a continuum of disease phenotypes in chronic lymphocytic leukemia.	Nat Genet	2016
26856307	Telomere dysfunction and chromothripsis.	Int J Cancer	2016
26814967	Active medulloblastoma enhancers reveal subgroup-specific cellular origins.	Nature	2016