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Evaluation of an Affymetrix High-density Oligonucleotide Microarray Platform as a Measurement System.
Published in:
Quality & Reliability Engineering International, 2005, v. 21, n. 5, p. 491, doi. 10.1002/qre.736
By:
- van den Heuvel, Edwin R.;
- Geeven, Geert;
- Bauerschmidt, Susanne;
- Polman, Jan E. M.
Publication type:
Article
peakC: a flexible, non-parametric peak calling package for 4C and Capture-C data.
Published in:
Nucleic Acids Research, 2018, v. 46, n. 15, p. e91, doi. 10.1093/nar/gky443
By:
- Geeven, Geert;
- Teunissen, Hans;
- de Laat, Wouter;
- de Wit, Elzo
Publication type:
Article
LLM3D: a log-linear modeling-based method to predict functional gene regulatory interactions from genome-wide expression data.
Published in:
Nucleic Acids Research, 2011, v. 39, n. 13, p. 5313, doi. 10.1093/nar/gkr139
By:
- Geeven, Geert;
- MacGillavry, Harold D.;
- Eggers, Ruben;
- Sassen, Marion M.;
- Verhaagen, Joost;
- Smit, August B.;
- de Gunst, Mathisca C. M.;
- van Kesteren, Ronald E.
Publication type:
Article
Targeted sequencing by proximity ligation for comprehensive variant detection and local haplotyping.
Published in:
Nature Biotechnology, 2014, v. 32, n. 10, p. 1019, doi. 10.1038/nbt.2959
By:
- de Vree, Paula J P;
- de Wit, Elzo;
- Yilmaz, Mehmet;
- van de Heijning, Monique;
- Klous, Petra;
- Verstegen, Marjon J A M;
- Wan, Yi;
- Teunissen, Hans;
- Krijger, Peter H L;
- Geeven, Geert;
- Eijk, Paul P;
- Sie, Daoud;
- Ylstra, Bauke;
- Hulsman, Lorette O M;
- van Dooren, Marieke F;
- van Zutven, Laura J C M;
- van den Ouweland, Ans;
- Verbeek, Sjef;
- van Dijk, Ko Willems;
- Cornelissen, Marion
Publication type:
Article
Comparison of Targeted Maximum Likelihood and Shrinkage Estimators of Parameters in Gene Networks.
Published in:
Statistical Applications in Genetics & Molecular Biology, 2012, v. 11, n. 5, p. -1, doi. 10.1515/1544-6115.1728
By:
- Geeven, Geert;
- van der Laan, Mark J.;
- de Gunst, Mathisca C.M.
Publication type:
Article
Bayesian mixture regression analysis for regulation of Pluripotency in ES cells.
Published in:
BMC Bioinformatics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12859-019-3331-2
By:
- Aflakparast, Mehran;
- Geeven, Geert;
- de Gunst, Mathisca C.M.
Publication type:
Article
Genome-wide profiling of p53-regulated enhancer RNAs uncovers a subset of enhancers controlled by a lncRNA.
Published in:
Nature Communications, 2015, v. 6, n. 3, p. 6520, doi. 10.1038/ncomms7520
By:
- Léveillé, Nicolas;
- Melo, Carlos A.;
- Rooijers, Koos;
- Díaz-Lagares, Angel;
- Melo, Sonia A.;
- Korkmaz, Gozde;
- Lopes, Rui;
- Moqadam, Farhad Akbari;
- Maia, Ana R.;
- Wijchers, Patrick J.;
- Geeven, Geert;
- den Boer, Monique L.;
- Kalluri, Raghu;
- de Laat, Wouter;
- Esteller, Manel;
- Agami, Reuven
Publication type:
Article
Enhancers reside in a unique epigenetic environment during early zebrafish development.
Published in:
Genome Biology, 2016, v. 17, p. 1, doi. 10.1186/s13059-016-1013-1
By:
- Kaaij, Lucas J. T.;
- Mokry, Michal;
- Meng Zhou;
- Musheev, Michael;
- Geeven, Geert;
- Melquiond, Adrien S. J.;
- de Jesus Domingues, António M.;
- de Laat, Wouter;
- Niehrs, Christof;
- Smith, Andrew D.;
- Ketting, René F.
Publication type:
Article
Local compartment changes and regulatory landscape alterations in histone H1-depleted cells.
Published in:
Genome Biology, 2015, v. 16, p. 1, doi. 10.1186/s13059-015-0857-0
By:
- Geeven, Geert;
- Yun Zhu;
- Byung Ju Kim;
- Bartholdy, Boris A.;
- Seung-Min Yang;
- Macfarlan, Todd S.;
- Gifford, Wesley D.;
- Pfaff, Samuel L.;
- Verstegen, Marjon J. A. M.;
- Pinto, Hugo;
- Vermunt, Marit W.;
- Creyghton, Menno P.;
- Wijchers, Patrick J.;
- Stamatoyannopoulos, John A.;
- Skoultchi, Arthur I.;
- de Laat, Wouter
Publication type:
Article
Re‐analysis of whole genome sequencing ends a diagnostic odyssey: Case report of an RNU4‐2 related neurodevelopmental disorder.
Published in:
Clinical Genetics, 2024, v. 106, n. 4, p. 512, doi. 10.1111/cge.14574
By:
- Schot, Rachel;
- Ferraro, Federico;
- Geeven, Geert;
- Diderich, Karin E. M.;
- Barakat, Tahsin Stefan
Publication type:
Article
Chromatin Conformation Links Putative Enhancers in Intracranial Aneurysm-Associated Regions to Potential Candidate Genes.
Published in:
2019
By:
- Laarman, Melanie D.;
- Geeven, Geert;
- Barnett, Phil;
- Bank, Netherlands Brain;
- Rinkel, Gabriël J. E.;
- de Laat, Wouter;
- Ruigrok, Ynte M.;
- Bakkers, Jeroen;
- Netherlands Brain Bank
Publication type:
journal article
AMFR dysfunction causes autosomal recessive spastic paraplegia in human that is amenable to statin treatment in a preclinical model.
Published in:
Acta Neuropathologica, 2023, v. 146, n. 2, p. 353, doi. 10.1007/s00401-023-02579-9
By:
- Deng, Ruizhi;
- Medico-Salsench, Eva;
- Nikoncuk, Anita;
- Ramakrishnan, Reshmi;
- Lanko, Kristina;
- Kühn, Nikolas A.;
- van der Linde, Herma C.;
- Lor-Zade, Sarah;
- Albuainain, Fatimah;
- Shi, Yuwei;
- Yousefi, Soheil;
- Capo, Ivan;
- van den Herik, Evita Medici;
- van Slegtenhorst, Marjon;
- van Minkelen, Rick;
- Geeven, Geert;
- Mulder, Monique T.;
- Ruijter, George J. G.;
- Lütjohann, Dieter;
- Jacobs, Edwin H.
Publication type:
Article
The role of confined placental mosaicism in fetal growth restriction: A retrospective cohort study.
Published in:
Prenatal Diagnosis, 2024, v. 44, n. 3, p. 289, doi. 10.1002/pd.6533
By:
- Eggenhuizen, Geerke M.;
- Go, Attie T. J. I.;
- Sauter, Zoë;
- Hoffer, Mariëtte J. V.;
- Haak, Monique C.;
- Geeven, Geert;
- Diderich, Karin E. M.;
- Joosten, Marieke;
- van den Born, Myrthe;
- Srebniak, Malgorzata I.;
- Van Opstal, Diane
Publication type:
Article
Multi-contact 4C: long-molecule sequencing of complex proximity ligation products to uncover local cooperative and competitive chromatin topologies.
Published in:
Nature Protocols, 2020, v. 15, n. 2, p. 364, doi. 10.1038/s41596-019-0242-7
By:
- Vermeulen, Carlo;
- Allahyar, Amin;
- Bouwman, Britta A. M.;
- Krijger, Peter H. L.;
- Verstegen, Marjon J. A. M.;
- Geeven, Geert;
- Valdes-Quezada, Christian;
- Renkens, Ivo;
- Straver, Roy;
- Kloosterman, Wigard P.;
- de Ridder, Jeroen;
- de Laat, Wouter
Publication type:
Article
Identification of context-specific gene regulatory networks with GEMULA—gene expression modeling using LAsso.
Published in:
Bioinformatics, 2012, v. 28, n. 2, p. 214, doi. 10.1093/bioinformatics/btr641
By:
- Geeven, Geert;
- van Kesteren, Ronald E.;
- Smit, August B.;
- de Gunst, Mathisca C. M.
Publication type:
Article
Hominin-specific regulatory elements selectively emerged in oligodendrocytes and are disrupted in autism patients.
Published in:
Nature Communications, 2020, v. 11, n. 1, p. 1, doi. 10.1038/s41467-019-14269-w
By:
- Castelijns, Bas;
- Baak, Mirna L.;
- Timpanaro, Ilia S.;
- Wiggers, Caroline R. M.;
- Vermunt, Marit W.;
- Shang, Peng;
- Kondova, Ivanela;
- Geeven, Geert;
- Bianchi, Valerio;
- de Laat, Wouter;
- Geijsen, Niels;
- Creyghton, Menno P.
Publication type:
Article

Found: 16