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Items: 6


HiPiler: Visual Exploration of Large Genome Interaction Matrices with Interactive Small Multiples.

Lekschas F, Bach B, Kerpedjiev P, Gehlenborg N, Pfister H.

IEEE Trans Vis Comput Graph. 2018 Jan;24(1):522-531. doi: 10.1109/TVCG.2017.2745978. Epub 2017 Aug 29.


RIsearch2: suffix array-based large-scale prediction of RNA-RNA interactions and siRNA off-targets.

Alkan F, Wenzel A, Palasca O, Kerpedjiev P, Rudebeck AF, Stadler PF, Hofacker IL, Gorodkin J.

Nucleic Acids Res. 2017 May 5;45(8):e60. doi: 10.1093/nar/gkw1325.


Forna (force-directed RNA): Simple and effective online RNA secondary structure diagrams.

Kerpedjiev P, Hammer S, Hofacker IL.

Bioinformatics. 2015 Oct 15;31(20):3377-9. doi: 10.1093/bioinformatics/btv372. Epub 2015 Jun 22.


Predicting RNA 3D structure using a coarse-grain helix-centered model.

Kerpedjiev P, Höner Zu Siederdissen C, Hofacker IL.

RNA. 2015 Jun;21(6):1110-21. doi: 10.1261/rna.047522.114. Epub 2015 Apr 22.


Adaptable probabilistic mapping of short reads using position specific scoring matrices.

Kerpedjiev P, Frellsen J, Lindgreen S, Krogh A.

BMC Bioinformatics. 2014 Apr 9;15:100. doi: 10.1186/1471-2105-15-100.


Complete genome sequence of the cystic fibrosis pathogen Achromobacter xylosoxidans NH44784-1996 complies with important pathogenic phenotypes.

Jakobsen TH, Hansen MA, Jensen PØ, Hansen L, Riber L, Cockburn A, Kolpen M, Rønne Hansen C, Ridderberg W, Eickhardt S, Hansen M, Kerpedjiev P, Alhede M, Qvortrup K, Burmølle M, Moser C, Kühl M, Ciofu O, Givskov M, Sørensen SJ, Høiby N, Bjarnsholt T.

PLoS One. 2013 Jul 22;8(7):e68484. doi: 10.1371/journal.pone.0068484. Print 2013.

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