Britta Bouwman

Publications
Grants
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Articles

Article: NATURE COMMUNICATIONS. 2024;15(1):1768
scCircle-seq unveils the diversity and complexity of extrachromosomal circular DNAs in single cells
Chen JP; Diekmann C; Wu H; Chen C; Della Chiara G; Berrino E; Georgiadis KL; Bouwman BAM; Virdi M; Harbers L; Bellomo SE; Marchio C; Bienko M; Crosetto N
Article: SCIENCE ADVANCES. 2023;9(45):eadi2095
XPF interacts with TOP2B for R-loop processing and DNA looping on actively transcribed genes
Chatzinikolaou G; Stratigi K; Siametis A; Goulielmaki E; Akalestou-Clocher A; Tsamardinos I; Topalis P; Austin C; Bouwman BAM; Crosetto N; Altmueller J; Garinis GA
Article: CURRENT OPINION IN GENETICS AND DEVELOPMENT. 2023;78:102020
A GC-centered view of 3D genome organization
Bouwman BAM; Crosetto N; Bienko M
Article: SCIENTIFIC DATA. 2022;9(1):400
An atlas of endogenous DNA double-strand breaks arising during human neural cell fate determination
Ballarino R; Bouwman BAM; Agostini F; Harbers L; Diekmann C; Wernersson E; Bienko M; Crosetto N
Article: CURRENT OPINION IN CELL BIOLOGY. 2022;74:7-12
RNA gradients: Shapers of 3D genome architecture
Bouwman BAM; Crosetto N; Bienko M
Article: METHODS IN MOLECULAR BIOLOGY. 2021;2162:261-281
Genome-Wide CRISPR Off-Target DNA Break Detection by the BLISS Method.
Ballarino R; Bouwman BAM; Crosetto N
Article: NATURE PROTOCOLS. 2020;15(12):3894-3941
Genome-wide detection of DNA double-strand breaks by in-suspension BLISS
Bouwman BAM; Agostini F; Garnerone S; Petrosino G; Gothe HJ; Sayols S; Moor AE; Itzkovitz S; Bienko M; Roukos V; Crosetto N
Article: NATURE MEDICINE. 2020;26(7):1063-1069
Colibactin DNA-damage signature indicates mutational impact in colorectal cancer
Dziubanska-Kusibab PJ; Berger H; Battistini F; Bouwman BAM; Iftekhar A; Katainen R; Cajuso T; Crosetto N; Orozco M; Aaltonen LA; Meyer TF
Journal article: NATURE PROTOCOLS. 2020;15(2):364-397
Multi-contact 4C: long-molecule sequencing of complex proximity ligation products to uncover local cooperative and competitive chromatin topologies
Vermeulen C; Allahyar A; Bouwman BAM; Krijger PHL; Verstegen MJAM; Geeven G; Valdes-Quezada C; Renkens I; Straver R; Kloosterman WP; de Ridder J; de Laat W
Article: CELL REPORTS. 2019;29(3):560-572.e4
Activation of Oncogenic Super-Enhancers Is Coupled with DNA Repair by RAD51
Hazan I; Monin J; Bouwman BAM; Crosetto N; Aqeilan RI
Article: MOLECULAR CELL. 2019;75(2):267-283.e12
Spatial Chromosome Folding and Active Transcription Drive DNA Fragility and Formation of Oncogenic MLL Translocations
Gothe HJ; Bouwman BAM; Gusmao EG; Piccinno R; Petrosino G; Sayols S; Drechsel O; Minneker V; Josipovic N; Mizi A; Nielsen CF; Wagner E-M; Takeda S; Sasanuma H; Hudson DF; Kindler T; Baranello L; Papantonis A; Crosetto N; Roukos V
Article: NATURE GENETICS. 2019;51(6):1011-1023
Release of paused RNA polymerase II at specific loci favors DNA double-strand-break formation and promotes cancer translocations
Dellino GI; Palluzzi F; Chiariello AM; Piccioni R; Bianco S; Furia L; De Conti G; Bouwman BAM; Melloni G; Guido D; Giaco L; Luzi L; Cittaro D; Faretta M; Nicodemi M; Crosetto N; Pelicci PG
Article: GENOME BIOLOGY. 2019;20(1):28
Modeling double strand break susceptibility to interrogate structural variation in cancer
Ballinger TJ; Bouwman BAM; Mirzazadeh R; Garnerone S; Crosetto N; Semple CA
Journal article: NATURE GENETICS. 2018;50(8):1151-1160
Enhancer hubs and loop collisions identified from single-allele topologies
Allahyar A; Vermeulen C; Bouwman BAM; Krijger PHL; Verstegen MJAM; Geeven G; van Kranenburg M; Pieterse M; Straver R; Haarhuis JHI; Jalink K; Teunissen H; Renkens IJ; Kloosterman WP; Rowland BD; de Wit E; de Ridder J; de Laat W
Article: MOLECULAR CELL. 2015;60(3):460-474
Transcription of Mammalian cis-Regulatory Elements Is Restrained by Actively Enforced Early Termination
Austenaa LMI; Barozzi I; Simonatto M; Masella S; Della Chiara G; Ghisletti S; Curina A; de Wit E; Bouwman BAM; de Pretis S; Piccolo V; Termanini A; Prosperini E; Pelizzola M; de Laat W; Natoli G
Article: CELL. 2014;157(2):369-381
A Single Oncogenic Enhancer Rearrangement Causes Concomitant EVI1 and GATA2 Deregulation in Leukemia
Groeschel S; Sanders MA; Hoogenboezem R; de Wit E; Bouwman BAM; Erpelinck C; van der Velden VHJ; Havermans M; Avellino R; van Lom K; Rombouts EJ; van Duin M; Doehner K; Beverloo HB; Bradner JE; Doehner H; Lowenberg B; Valk PJM; Bindels EMJ; de Laat W; Delwel R
Article: NATURE. 2013;501(7466):227-231
The pluripotent genome in three dimensions is shaped around pluripotency factors
de Wit E; Bouwman BAM; Zhu Y; Klous P; Splinter E; Verstegen MJAM; Krijger PHL; Festuccia N; Nora EP; Welling M; Heard E; Geijsen N; Poot RA; Chambers I; de Laat W
Article: NATURE METHODS. 2012;9(10):969-972
Robust 4C-seq data analysis to screen for regulatory DNA interactions
van de Werken HJG; Landan G; Holwerda SJB; Hoichman M; Klous P; Chachik R; Splinter E; Valdes-Quezada C; Oz Y; Bouwman BAM; Verstegen MJAM; de Wit E; Tanay A; de Laat W
Article: PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA. 2012;109(14):E812-E820
Wnt/β-catenin signaling requires interaction of the Dishevelled DEP domain and C terminus with a discontinuous motif in Frizzled
Tauriello DVF; Jordens I; Kirchner K; Slootstra JW; Kruitwagen T; Bouwman BAM; Noutsou M; Rudiger SGD; Schwamborn K; Schambony A; Maurice MM
Article: STEM CELLS. 2011;29(6):964-971
Single Transcription Factor Reprogramming of Hair Follicle Dermal Papilla Cells to Induced Pluripotent Stem Cells
Tsai S-Y; Bouwman BA; Ang Y-S; Kim SJ; Lee D-F; Lemischka IR; Rendl M

All other publications

Corrigendum: NATURE COMMUNICATIONS. 2024;15(1):3390
scCircle-seq unveils the diversity and complexity of extrachromosomal circular DNAs in single cells (vol 15, 1768, 2024)
Chen JP; Diekmann C; Wu H; Chen C; Della Chiara G; Berrino E; Georgiadis KL; Bouwman BAM; Virdi M; Harbers L; Bellomo SE; Marchio C; Bienko M; Crosetto N
Preprint: RESEARCH SQUARE. 2023
scCircle-seq unveils the diversity and complexity of circular DNAs in single cells
Chen JP; Bouwman B; Wu H; Chen C; Bienko M; Crosetto N
Review: TRENDS IN GENETICS. 2022;38(10):1062-1075
The era of 3D and spatial genomics
Bouwman BAM; Crosetto N; Bienko M
Preprint: BIORXIV. 2020
ERCC1-XPF Interacts with Topoisomerase IIβ to Facilitate the Repair of Activity-induced DNA Breaks
Chatzinikolaou G; Stratigi K; Agathangelou K; Tsekrekou M; Goulielmaki E; Chatzidoukaki O; Gkirtzimanaki K; Aid-Pavlidis T; Aivaliotis M; Pavlidis P; Tsamardinos I; Topalis P; Bouwman BAM; Crosetto N; Altmüller J; Garinis GA
Preprint: BIORXIV. 2019
Colibactin DNA damage signature indicates causative role in colorectal cancer
Dziubańska-Kusibab PJ; Berger H; Battistini F; Bouwman BAM; Iftekhar A; Katainen R; Crosetto N; Orozco M; Aaltonen LA; Meyer TF
Review: GENES. 2018;9(12):E632-632
Endogenous DNA Double-Strand Breaks during DNA Transactions: Emerging Insights and Methods for Genome-Wide Profiling
Bouwman BAM; Crosetto N
Preprint: BIORXIV. 2018
Spatial chromosome folding and active transcription drive DNA fragility and formation of oncogenic MLL translocations
Gothe HJ; Bouwman BAM; Gusmao EG; Piccinno R; Sayols S; Drechsel O; Petrosino G; Minneker V; Josipovic N; Mizi A; Nielsen CF; Wagner E-M; Takeda S; Sasanuma H; Hudson DF; Kindler T; Baranello L; Papantonis A; Crosetto N; Roukos V
Preprint: BIORXIV. 2018
Modelling double strand break susceptibility to interrogate structural variation in cancer
Ballinger T; Bouwman B; Mirzazadeh R; Garnerone S; Crosetto N; Semple C
Preprint: BIORXIV. 2017
Locus-Specific Enhancer Hubs And Architectural Loop Collisions Uncovered From Single Allele DNA Topologies
Allahyar A; Vermeulen C; Bouwman BAM; Krijger PHL; Verstegen MJAM; Geeven G; Kranenburg MV; Pieterse M; Straver R; Haarhuis JHI; Teunissen H; Renkens I; Kloosterman W; Rowland B; de Wit E; de Ridder J; de Laat W
Review: FEBS LETTERS. 2015;589(20):2905-2913
Architectural hallmarks of the pluripotent genome
Bouwman BAM; de Laat W
Review: GENOME BIOLOGY. 2015;16(1):154
Getting the genome in shape: the formation of loops, domains and compartments
Bouwman BAM; de Laat W

Grants

Genomics in single cells: shape and function of the genome
Dutch Research Council
1 June 2013 - 31 May 2018

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