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1

Progress and prospects in rat genetics: a community view

Aitman, Timothy J, Critser, John K, Cuppen, Edwin, Dominiczak, Anna, Fernandez-Suarez, Xose M, Flint, Jonathan, Gauguier, Dominique, Geurts, Aron M, Gould, Michael, Harris, Peter C

Journal:

Nature Genetics

Year:

2008

Language:

english

File:

PDF, 234 KB

english, 2008

2

Diversity of microRNAs in human and chimpanzee brain

Berezikov, Eugene, Thuemmler, Fritz, van Laake, Linda W, Kondova, Ivanela, Bontrop, Ronald, Cuppen, Edwin, Plasterk, Ronald H A

Journal:

Nature Genetics

Year:

2006

Language:

english

File:

PDF, 139 KB

english, 2006

3

The Serotonin Transporter Plays an Important Role in Male Sexual Behavior: A Study in Serotonin Transporter Knockout Rats

Johnny S.W. Chan, Eelke M.S. Snoeren, Edwin Cuppen, Marcel D. Waldinger, Berend Olivier, Ronald S. Oosting

Journal:

The Journal of Sexual Medicine

Year:

2011

Language:

english

File:

PDF, 573 KB

english, 2011

4

Functional Repair of CFTR by CRISPR/Cas9 in Intestinal Stem Cell Organoids of Cystic Fibrosis Patients

Schwank, Gerald, Koo, Bon-Kyoung, Sasselli, Valentina, Dekkers, Johanna F., Heo, Inha, Demircan, Turan, Sasaki, Nobuo, Boymans, Sander, Cuppen, Edwin, van der Ent, Cornelis K., Nieuwenhuis, Edward E.S

Journal:

Year:

2013

Language:

english

File:

PDF, 2.94 MB

english, 2013

5

Toward effective software solutions for big biology

Prins, Pjotr, de Ligt, Joep, Tarasov, Artem, Jansen, Ritsert C, Cuppen, Edwin, Bourne, Philip E

Journal:

Nature Biotechnology

Year:

2015

Language:

english

File:

PDF, 195 KB

english, 2015

6

A deep learning system accurately classifies primary and metastatic cancers using passenger mutation patterns

Jiao, Wei, Atwal, Gurnit, Polak, Paz, Karlic, Rosa, Cuppen, Edwin, Danyi, Alexandra, de Ridder, Jeroen, van Herpen, Carla, Lolkema, Martijn P., Steeghs, Neeltje, Getz, Gad, Morris, Quaid, Stein, Linco

Journal:

Nature Communications

Year:

2020

File:

PDF, 808 KB

2020

7

Proteins interacting with Caenorhabditis elegans Gα subunits

Edwin Cuppen, Alexander M. van der Linden, Gert Jansen, Ronald H. A. Plasterk

Journal:

Comparative and Functional Genomics

Year:

2003

Language:

english

File:

PDF, 296 KB

english, 2003

8

Identification of genetic modifiers of behavioral phenotypes in serotonin transporter knockout rats

Judith Homberg, Isaäc J Nijman, Sylvia Kuijpers, Edwin Cuppen

Journal:

Year:

2010

Language:

english

File:

PDF, 1.26 MB

english, 2010

9

Identification of factors required for meristem function in Arabidopsis using a novel next generation sequencing fast forward genetics approach

Michal Mokry, Isaäc J Nijman, Anja van Dijken, Rene Benjamins, Renze Heidstra, Ben Scheres, Edwin Cuppen

Journal:

Year:

2011

Language:

english

File:

PDF, 1.58 MB

english, 2011

10

Acute and constitutive increases in central serotonin levels reduce social play behaviour in peri-adolescent rats

Judith R. Homberg, Olga J. G. Schiepers, Anton N. M. Schoffelmeer, Edwin Cuppen, Louk J. M. J. Vanderschuren

Journal:

Psychopharmacology

Year:

2007

Language:

english

File:

PDF, 210 KB

english, 2007

11

The mutation of the LEW.1AR1-iddmrat maps to the telomeric end of rat chromosome 1

Heike Weiss, Tanja Arndt, Anne Jörns, Sigurd Lenzen, Edwin Cuppen, Hans J. Hedrich, Markus Tiedge, Dirk Wedekind

Journal:

Mammalian Genome

Year:

2008

Language:

english

File:

PDF, 282 KB

english, 2008

12

Completion of meiosis in male zebrafish (Danio rerio) despite lack of DNA mismatch repair genemlh1

Marcelo C. Leal, Harma Feitsma, Edwin Cuppen, Luiz R. França, Rüdiger W. Schulz

Journal:

Cell and Tissue Research

Year:

2008

Language:

english

File:

PDF, 392 KB

english, 2008

13

Genomic DNA Pooling Strategy for Next-Generation Sequencing-Based Rare Variant Discovery in Abdominal Aortic Aneurysm Regions of Interest—Challenges and Limitations

Magdalena Harakalova, Isaäc J. Nijman, Jelena Medic, Michal Mokry, Ivo Renkens, Jan D. Blankensteijn, Wigard Kloosterman, Annette F. Baas, Edwin Cuppen

Journal:

Journal of Cardiovascular Translational Research

Year:

2011

Language:

english

File:

PDF, 379 KB

english, 2011

14

Phylogeny of Y chromosomes from bovine species

Isaäc J. Nijman, Dick C. J. Van Boxtel, Lisette M. Van Cann, Yindee Marnoch, Edwin Cuppen, Johannes A. Lenstra

Journal:

Year:

2008

Language:

english

File:

PDF, 277 KB

english, 2008

15

Serotonin transporter deficiency in rats improves inhibitory control but not behavioural flexibility

Judith R. Homberg, Tommy Pattij, Mieke C. W. Janssen, Eric Ronken, Sietse F. De Boer, Anton N. M. Schoffelmeer, Edwin Cuppen

Journal:

European Journal of Neuroscience

Year:

2007

Language:

english

File:

PDF, 278 KB

english, 2007

16

miRNAs: small changes, widespread effects

Linsen, Sam EV, Tops, Bastiaan BJ, Cuppen, Edwin

Journal:

Year:

2008

Language:

english

File:

PDF, 246 KB

english, 2008

17

ALK2 mutation in a patient with Down's syndrome and a congenital heart defect

Joziasse, Irene C, Smith, Kelly A, Chocron, Sonja, van Dinther, Maarten, Guryev, Victor, van de Smagt, Jasper J, Cuppen, Edwin, ten Dijke, Peter, Mulder, Barbara JM, Maslen, Cheryl L

Journal:

European Journal of Human Genetics

Year:

2011

Language:

english

File:

PDF, 401 KB

english, 2011

18

The Wnt/β-catenin pathway regulates cardiac valve formation

Hurlstone, Adam F. L., Haramis, Anna-Pavlina G., Wienholds, Erno, Begthel, Harry, Korving, Jeroen, van Eeden, Fredericus, Cuppen, Edwin, Zivkovic, Danica, Plasterk, Ronald H. A., Clevers, Hans

Journal:

Year:

2003

Language:

english

File:

PDF, 451 KB

english, 2003

19

SNP and haplotype mapping for genetic analysis in the rat

Saar, Kathrin, Beck, Alfred, Bihoreau, Marie-Thérèse, Birney, Ewan, Brocklebank, Denise, Chen, Yuan, Cuppen, Edwin, Demonchy, Stephanie, Dopazo, Joaquin, Flicek, Paul

Journal:

Nature Genetics

Year:

2008

Language:

english

File:

PDF, 332 KB

english, 2008

20

The microRNA-producing enzyme Dicer1 is essential for zebrafish development

Wienholds, Erno, Koudijs, Marco J, van Eeden, Freek J M, Cuppen, Edwin, Plasterk, Ronald H A

Journal:

Nature Genetics

Year:

2003

Language:

english

File:

PDF, 568 KB

english, 2003

21

Approaches to microRNA discovery

Berezikov, Eugene, Cuppen, Edwin, Plasterk, Ronald H A

Journal:

Nature Genetics

Year:

2006

Language:

english

File:

PDF, 279 KB

english, 2006

22

Mutation discovery by targeted genomic enrichment of multiplexed barcoded samples

Nijman, Isaäc J, Mokry, Michal, van Boxtel, Ruben, Toonen, Pim, de Bruijn, Ewart, Cuppen, Edwin

Journal:

Year:

2010

Language:

english

File:

PDF, 372 KB

english, 2010

23

Serotonin Transporter Deficiency Increases Abdominal Fat in Female, but Not Male Rats

Homberg, Judith R., la Fleur, Susanne E., Cuppen, Edwin

Journal:

Year:

2009

Language:

english

File:

PDF, 379 KB

english, 2009

24

Melanocortin Receptor 4 Deficiency Affects Body Weight Regulation, Grooming Behavior, and Substrate Preference in the Rat

Joram D. Mul, Ruben van Boxtel, Dylan J.M. Bergen, Maike A.D. Brans, Jan H. Brakkee, Pim W. Toonen, Keith M. Garner, Roger A.H. Adan, Edwin Cuppen

Journal:

Year:

2012

Language:

english

File:

PDF, 3.11 MB

english, 2012

25

RAP-1 and the RAL-1/exocyst pathway coordinate hypodermal cell organization in Caenorhabditis elegans

Frische, Ester W, Pellis-van Berkel, Wendy, van Haaften, Gijs, Cuppen, Edwin, Plasterk, Ronald H A, Tijsterman, Marcel, Bos, Johannes L, Zwartkruis, Fried J T

Journal:

The EMBO Journal

Year:

2007

Language:

english

File:

PDF, 337 KB

english, 2007

26

Resolving the Breakpoints of the 17q21.31 Microdeletion Syndrome with Next-Generation Sequencing

Andy Itsara, Lisenka E.L.M. Vissers, Karyn Meltz Steinberg, Kevin J. Meyer, Michael C. Zody, David A. Koolen, Joep de Ligt, Edwin Cuppen, Carl Baker, Choli Lee, Tina A. Graves, Richard K. Wilson, Robe

Journal:

The American Journal of Human Genetics

Year:

2012

Language:

english

File:

PDF, 894 KB

english, 2012

27

Mutagenic Capacity of Endogenous G4 DNA Underlies Genome Instability in FANCJ-Defective C. elegans

Evelien Kruisselbrink, Victor Guryev, Karin Brouwer, Daphne B. Pontier, Edwin Cuppen, Marcel Tijsterman

Journal:

Current Biology

Year:

2008

Language:

english

File:

PDF, 813 KB

english, 2008

28

Stress-induced hyperthermia and basal body temperature are mediated by different 5-HT1A receptor populations: A study in SERT knockout rats

Jocelien D.A. Olivier, Alexander R. Cools, Berend Olivier, Judith R. Homberg, Edwin Cuppen, Bart A. Ellenbroek

Journal:

European Journal of Pharmacology

Year:

2008

Language:

english

File:

PDF, 822 KB

english, 2008

29

Next-generation sequencing approaches in genetic rodent model systems to study functional effects of human genetic variation

Victor Guryev, Edwin Cuppen

Journal:

Year:

2009

Language:

english

File:

PDF, 503 KB

english, 2009

30

Haplotype-based genetics in mice and rats

Journal:

Trends in Genetics

Year:

2005

Language:

english

File:

PDF, 256 KB

english, 2005

31

Rat genetics: the next episode

Bart M.G. Smits, Edwin Cuppen

Journal:

Trends in Genetics

Year:

2006

Language:

english

File:

PDF, 248 KB

english, 2006

32

Disclosure of individual genetic data to research participants: the debate reconsidered

Annelien L. Bredenoord, Hester Y. Kroes, Edwin Cuppen, Michael Parker, Johannes J.M. van Delden

Journal:

Trends in Genetics

Year:

2011

Language:

english

File:

PDF, 150 KB

english, 2011

33

Hyperactivation of the G12-Mediated Signaling Pathway in Caenorhabditis elegans Induces a Developmental Growth Arrest via Protein Kinase C

Alexander M. van der Linden, Celine Moorman, Edwin Cuppen, Hendrik C. Korswagen, Ronald H.A. Plasterk

Journal:

Current Biology

Year:

2003

Language:

english

File:

PDF, 227 KB

english, 2003

34

Effector identification in the lettuce downy mildew Bremia lactucae by massively parallel transcriptome sequencing

JOOST H. M. STASSEN, MICHAEL F. SEIDL, PIM W. J. VERGEER, ISAÄC J. NIJMAN, BEREND SNEL, EDWIN CUPPEN, GUIDO VAN DEN ACKERVEKEN

Journal:

Molecular Plant Pathology

Year:

2012

Language:

english

File:

PDF, 715 KB

english, 2012

35

Serotonin Transporter Null Mutation and Sexual Behavior in Female Rats: 5-HT1A Receptor Desensitization

Eelke Snoeren, Johnny Chan, Astrid Bovens, Edwin Cuppen, Marcel Waldinger, Berend Olivier, Ronald Oosting

Journal:

The Journal of Sexual Medicine

Year:

2010

Language:

english

File:

PDF, 579 KB

english, 2010

36

Small RNA expression and strain specificity in the rat

Sam EV Linsen, Elzo de Wit, Ewart de Bruijn, Edwin Cuppen

Journal:

Year:

2010

Language:

english

File:

PDF, 765 KB

english, 2010

37

CASCAD: a database of annotated candidate single nucleotide polymorphisms associated with expressed sequences

Victor Guryev, Eugene Berezikov, Edwin Cuppen

Journal:

Year:

2005

Language:

english

File:

PDF, 561 KB

english, 2005

38

Efficient single nucleotide polymorphism discovery in laboratory rat strains using wild rat-derived SNP candidates

Bart MG Smits, Victor Guryev, Dimphy Zeegers, Dirk Wedekind, Hans J Hedrich, Edwin Cuppen

Journal:

Year:

2005

Language:

english

File:

PDF, 511 KB

english, 2005

39

Improved generation of rat gene knockouts by target-selected mutagenesis in mismatch repair-deficient animals

Ruben van Boxtel, Pim W Toonen, Mark Verheul, Henk S van Roekel, Isaac J Nijman, Victor Guryev, Edwin Cuppen

Journal:

Year:

2008

Language:

english

File:

PDF, 441 KB

english, 2008

40

A genome-wide SNP panel for mapping and association studies in the rat

Isaäc J Nijman, Sylvia Kuipers, Mark Verheul, Victor Guryev, Edwin Cuppen

Journal:

Year:

2008

Language:

english

File:

PDF, 3.09 MB

english, 2008

41

Homozygous and Heterozygous p53 Knockout Rats Develop Metastasizing Sarcomas with High Frequency

Ruben van Boxtel, Raoul V. Kuiper, Pim W. Toonen, Sebastiaan van Heesch, Roel Hermsen, Alain de Bruin, Edwin Cuppen

Journal:

The American Journal of Pathology

Year:

2011

Language:

english

File:

PDF, 2.09 MB

english, 2011

42

Phylogenetic Shadowing and Computational Identification of Human microRNA Genes

Eugene Berezikov, Victor Guryev, José van de Belt, Erno Wienholds, Ronald H.A. Plasterk, Edwin Cuppen

Journal:

Year:

2005

Language:

english

File:

PDF, 192 KB

english, 2005

43

Mammalian Mirtron Genes

Eugene Berezikov, Wei-Jen Chung, Jason Willis, Edwin Cuppen, Eric C. Lai

Journal:

Year:

2007

Language:

english

File:

PDF, 1.77 MB

english, 2007

44

Serotonin transporter dosage modulates long-term decision-making in rat and human

Judith R. Homberg, Ruud van den Bos, Esther den Heijer, Remco Suer, Edwin Cuppen

Journal:

Neuropharmacology

Year:

2008

Language:

english

File:

PDF, 325 KB

english, 2008

45

The effect of COMT Val158 Met genotype on decision-making and preliminary findings on its interaction with the 5-HTTLPR in healthy females

Ruud van den Bos, Judith Homberg, Ellen Gijsbers, Esther den Heijer, Edwin Cuppen

Journal:

Neuropharmacology

Year:

2009

Language:

english

File:

PDF, 232 KB

english, 2009

46

Target-selected mutagenesis of the rat

Bart M.G Smits, Josine Mudde, Ronald H.A Plasterk, Edwin Cuppen

Journal:

Year:

2004

Language:

english

File:

PDF, 134 KB

english, 2004

47

The neuronal nitric oxide synthase PDZ motif binds to -G(D,E)XV* carboxyterminal sequences

Jan Schepens, Edwin Cuppen, Bé Wieringa, Wiljan Hendriks

Journal:

Year:

1997

Language:

english

File:

PDF, 564 KB

english, 1997

48

Identification and molecular characterization of BP75, a novel bromodomain-containing protein

Edwin Cuppen, Marco van Ham, Barry Pepers, Bé Wieringa, Wiljan Hendriks

Journal:

Year:

1999

Language:

english

File:

PDF, 834 KB

english, 1999

49

The zyxin-related protein TRIP6 interacts with PDZ motifs in the adaptor protein RIL and the protein tyrosine phosphatase PTP-BL

Edwin Cuppen, Marco van Ham, Derick G. Wansink, Anuradha de Leeuw, Bé Wieringa, Wiljan Hendriks

Journal:

European Journal of Cell Biology

Year:

2000

Language:

english

File:

PDF, 369 KB

english, 2000

50

Chromothripsis in congenital disorders and cancer: similarities and differences

Kloosterman, Wigard P, Cuppen, Edwin

Journal:

Current Opinion in Cell Biology

Year:

2013

Language:

english

File:

PDF, 958 KB

english, 2013

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