My personal and professional adventure into Science

Publications

Bent Petersen – Google Scholar Citations

Peer-Reviewed Journals

11. Using expected sequence features to improve basecalling accuracy of amplicon pyrosequencing data

Thomas S. Rask, Bent Petersen, Donald S. Chen, Karen P. Day and Anders Gorm Pedersen
BMC Bioinformatics, 201617:176 DOI: 10.1186/s12859-016-1032-7

10. Tracking the origins of Yakutian horses and the genetic basis for their fast adaptation to subarctic environments

Pablo Librado, Clio Der Sarkissian, Luca Ermini, Mikkel Schubert, Hákon Jónsson, Anders Albrechtsen, Matteo Fumagalli, Melinda A. Yang, Cristina Gamba, Andaine Seguin-Orlando, Cecilie D. Mortensen, Bent Petersen, Cindi A. Hoover, Belen Lorente-Galdos, Artem Nedoluzhko, Eugenia Boulygina, Svetlana Tsygankova, Markus Neuditschko, Vidhya Jagannathan, Catherine Thèves, Ahmed H. Alfarhan, Saleh A. Alquraishi, Khaled A. S. Al-Rasheid, Thomas Sicheritz-Ponten, Ruslan Popov, Semyon Grigoriev, Anatoly N. Alekseev, Edward M. Rubin, Molly McCue, Stefan Rieder, Tosso Leeb, Alexei Tikhonov, Eric Crubézy, Montgomery Slatkin, Tomas Marques-Bonet, Rasmus Nielsen, Eske Willerslev, Juha Kantanen, Egor Prokhortchouk, and Ludovic Orlando
PNAS 2015 ; published ahead of print November 23, 2015, doi:10.1073/pnas.1513696112

9. Within-host microevolution of Pseudomonas aeruginosa in Italian cystic fibrosis patients

Rasmus Lykke Marvig, Daniela Dolce, Lea M. Sommer, Bent Petersen, Oana Ciofu, Silvia Campana, Søren Molin, Giovanni Taccetti and Helle Krogh Johansen
BMC Microbiology 2015, 15:218 doi:10.1186/s12866-015-0563-9

8. Evolutionary Genomics and Conservation of the Endangered Przewalski’s Horse
Sarkissian CD, Ermini L, Schubert M, Yang MA, Librado P, Fumagalli M, Jónsson H, Bar-Gal GK, Albrechtsen A, Vieira FG, Petersen B, Ginolhac A, Seguin-Orlando A, Magnussen K, Fages A, Gamba C, Lorente-Galdos B, Polani S, Steiner C, Neuditschko M, Jagannathan V, Feh C, Greenblatt CL, Ludwig A, Abramson NI, Zimmermann W, Schafberg R, Tikhonov A, Sicheritz-Ponten T, Willerslev E, Marques-Bonet T, Ryder OA, McCue M, Rieder S, Leeb T, Slatkin M, Orlando L
Cell Current Biology 24 Sep, 2015

7. Structural Conservation Despite Huge Sequence Diversity Allows EPCR Binding by the PfEMP1 Family Implicated in Severe Childhood Malaria
Clinton K.Y. Lau, Louise Turner, Jakob S. Jespersen, Edward D. Lowe, Bent Petersen, Christian W. Wang, Jens E.V. Petersen, John Lusingu, Thor G. Theander, Thomas Lavstsen, Matthew K. Higgins
Cell Host & Microbe, Available online 4 December 2014, ISSN 1931-3128, http://dx.doi.org/10.1016/j.chom.2014.11.007

6. Prehistoric genomes reveal the genetic foundation and cost of horse domestication.
Mikkel Schubert, Hákon Jónsson, Dan Chang, Clio Der Sarkissian, Luca Ermini, Aurélien Ginolhac, Anders Albrechtsen, Isabelle Dupanloup, Adrien Foucal, Bent Petersen, Matteo Fumagalli, Maanasa Raghavan, Andaine Seguin-Orlando, Thorfinn S. Korneliussen, Amhed M. V. Velazquez, Jesper Stenderup, Cindi A. Hoover, Carl-Johan Rubin, Ahmed H. Alfarhan, Saleh A. Alquraishi, Khaled A. S. Al-Rasheid, David E. MacHugh, Ted Kalbfleisch, James N. MacLeod, Edward M. Rubin, Thomas Sicheritz-Ponten, Leif Andersson, Michael Hofreiter, Tomas Marques-Bonet, M. Thomas P. Gilbert, Rasmus Nielsen, Laurent Excoffier, Eske Willerslev, Beth Shapiro, and Ludovic Orlando
PNAS 2014 ; published ahead of print December 15, 2014, doi:10.1073/pnas.1416991111

5. Whole Genome Analyses Resolve Early Branches in the Tree of Life of Modern Birds.
Jarvis ED, Mirarab S, Aberer AJ, Li B, Houde P, Li C, Ho SYW, Faircloth BC, Nabholz B, Howard JT, Suh A, Weber CC, Fonseca RRd, Li J, Zhang F, Li H, Zhou L, Narula N, Liu L, Ganapathy G, Boussau B, Bayzid MdS, Zavidovych V, Subramanian S, Gabaldón T, Capella-Gutiérrez S, Huerta-Cepas J, Rekepalli B, Munch K, Schierup M, Lindow B, Warren WC, Ray D, Green RE, Bruford M, Zhan X, Dixon A, Li S, Li N, Huang Y, Derryberry EP, Bertelsen MF, Sheldon FH, Brumfield RT, Mello CV, Lovell PV, Wirthlin M, Schneider MPC, Prosdocimi F, Samaniego JA, Velazquez AMV, Alfaro-Núñez A, Campos PF, Petersen B, Sicheritz-Ponten T, Pas A, Bailey T, Scofield P, Bunce M, Lambert DM, Zhou Q, Perelman R, Driskell AC, Shapiro B, Xiong Z, Zeng Y, Liu S, Li Z, Liu B, Wu K, Xiao J, Yinqi X, Zheng Q, Zhang Y, Yang H, Wang J, Smeds L, Rheindt FE, Braun M, Fjeldsa J, Orlando L, Barker K, Jønsson KA, Johnson W, Koepfli KP, OBrien S, Haussler D, Ryder OA, Rahbek C, Willerslev E, Graves GR, Glenn TC, McCormack J, Burt D, Ellegren H, Alström P, Edwards SW, Stamatakis A, Mindell DP, Cracraft J, Braun EL, Warnow T, Jun W, Gilbert MTP, Zhang G
Science 12 December 2014: 13201331

4. Speciation with gene flow in equids despite extensive chromosomal plasticity.
Hákon Jónsson, Mikkel Schubert, Andaine Seguin-Orlando, Aurélien Ginolhac, Lillian Petersen, Matteo Fumagalli, Anders Albrechtsen, Bent Petersen, Thorfinn S. Korneliussen, Julia T. Vilstrup, Teri Lear, Jennifer Leigh Myka, Judith Lundquist, Donald C. Miller, Ahmed H. Alfarhan, Saleh A. Alquraishi, Khaled A. S. Al-Rasheid, Julia Stagegaard, Günter Strauss, Mads Frost Bertelsen, Thomas Sicheritz-Ponten, Douglas F. Antczak, Ernest Bailey, Rasmus Nielsen, Eske Willerslev, and Ludovic Orlando
PNAS 2014 ; published ahead of print December 1, 2014, doi:10.1073/pnas.1412627111

3. Recalibrating Equus evolution using the genome sequence of an early Middle Pleistocene horse.
Ludovic Orlando, Aurélien Ginolhac, Guojie Zhang, Duane Froese, Anders Albrechtsen, Mathias Stiller, Mikkel Schubert, Enrico Cappellini, Bent Petersen, Ida Moltke, Philip L. F. Johnson, Matteo Fumagalli, Julia T. Vilstrup, Maanasa Raghavan, Thorfinn Korneliussen, Anna-Sapfo Malaspinas, Josef Vogt, Damian Szklarczyk, Christian D. Kelstrup, Jakob Vinther, Andrei Dolocan, Jesper Stenderup, Amhed M. V. Velazquez, James Cahill, Morten Rasmussen et al.,
Nature (2013) doi:10.1038/nature12323

2. NetTurnP – Neural Network Prediction of Beta-turns by Use of Evolutionary Information and Predicted. Protein Sequence Features.
Petersen, B., Lundegaard, C. & Petersen, T. N.
PLoS One 5, e15079 (2010). PDFWebserver

1. A generic method for assignment of reliability scores applied to solvent accessibility predictions.
Petersen, B., Petersen, T., Andersen, P., Nielsen, M. & Lundegaard, C.
BMC Structural Biology 9, 51 (2009). PDF, Webserver

 

Conference Abstracts 

R. J. N. Frandsen A. R. Van Dam, Daniel Peterson, Nate Hardy, Bent Petersen, Simon Rasmussen, Marlene Dalgaard, Thomas Sicheritz Pontén, Benjamin Normark, U. H. Mortensen – Genetic basis of polyphagy in scale insects (Hemiptera: Coccoidea) explored via RNA-Seq – Entomological Society of America Annual Meeting 2014

R. J. N. Frandsen A. R. Van Dam, Simon Rasmussen, Bent Petersen, Rubini Kannangara, Paiman Khorsand-Jamal, Bjoern Madsen, Finn Okkels, Mads Bennedsen, Kim Binderup, Thomas Sicheritz Pontén, Ulf Thrane, Birger Lindberg Møller, U. H. Mortensen – The cochineal insect genome: Dactylopius coccus Genome assembly – Entomological Society of America Annual Meeting 2014

Jespersen, Jakob S.; Petersen, Bent; Seguin-Orlando, Andaine; Willerslev, Eske; Gilbert, M. Thomas P.; Lusingu, John; Theander, Thor G.; Lavstsen, Thomas. – Analyzing Plasmodium falciparum erythrocyte membrane protein 1 gene expression by a next generation sequencing based method. PDF

 

Dissertation

Petersen, Bent ; Lundegaard, Claus ; Petersen, Thomas Nordahl – Prediction of protein structural features by use of artificial neural networks. PhD thesis, PDF