Thomas D. Otto

Publication Activity (10 Years)

Years Active: 2003-2023
Publications (10 Years): 5

Top Topics

Rna Secondary Structures

Top Venues

Briefings Bioinform.

Nucleic Acids Res.

Publications

William Haese-Hill, Kathryn Crouch, Thomas D. Otto
peaks2utr: a robust Python tool for the annotation of 3′ UTRs. Bioinform. 39 (3) (2023)
José Luis Ruiz, Susanne Reimering, Juan David Escobar-Prieto, Nicolas M. B. Brancucci, Diego F. Echeverry, Abdirahman I Abdi, Matthias Marti, Elena Gómez-Díaz, Thomas D. Otto
From contigs towards chromosomes: automatic improvement of long read assemblies (ILRA). Briefings Bioinform. 24 (4) (2023)
Gavin Mackenzie, Rasmus W. Jensen, Thomas Lavstsen, Thomas D. Otto
Varia: a tool for prediction, analysis and visualisation of variable genes. BMC Bioinform. 23 (1) (2022)
Alexandrina Pancheva, Helen Wheadon, Simon Rogers, Thomas D. Otto
Using topic modeling to detect cellular crosstalk in scRNA-seq. PLoS Comput. Biol. 18 (4) (2022)
Sascha Steinbiss, Fatima Silva-Franco, Brian P. Brunk, Bernardo Foth, Christiane Hertz-Fowler, Matthew Berriman, Thomas D. Otto
Companion: a web server for annotation and analysis of parasite genomes. Nucleic Acids Res. 44 (Webserver-Issue) (2016)
Martin Hunt, Astrid Gall, Swee Hoe Ong, Jacqui Brener, Bridget Ferns, Philip J. R. Goulder, Eleni Nastouli, Jacqueline A. Keane, Paul Kellam, Thomas D. Otto
assembly of RNA virus genomes. Bioinform. 31 (14) (2015)
Tim Carver, Simon R. Harris, Thomas D. Otto, Matthew Berriman, Julian Parkhill, Jacqueline A. McQuillan
BamView: visualizing and interpretation of next-generation sequencing read alignments. Briefings Bioinform. 14 (2) (2013)
Sérgio Lifschitz, Carlos Juliano M. Viana, Cristian Tristão, Marcos Catanho, Wim M. Degrave, Antonio Basílio de Miranda, Márcia Bezerra, Thomas D. Otto
Design and Implementation of ProteinWorldDB. BSB (2012)
Tim Carver, Ulrike Böhme, Thomas D. Otto, Julian Parkhill, Matthew Berriman
BamView: viewing mapped read alignment data in the context of the reference sequence. Bioinform. 26 (5) (2010)
Thomas D. Otto, Marcos Catanho, Cristian Tristão, Márcia Bezerra, Renan Mathias Fernandes, Guilherme Steinberger Elias, Alexandre Capeletto Scaglia, Bill Bovermann, Viktors Berstis, Sérgio Lifschitz, Antonio Basílio de Miranda, Wim M. Degrave
ProteinWorldDB: querying radical pairwise alignments among protein sets from complete genomes. Bioinform. 26 (5) (2010)
Thomas D. Otto, Mandy Sanders, Matthew Berriman, Chris Newbold
Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology. Bioinform. 26 (14) (2010)
Samuel A. Assefa, Thomas M. Keane, Thomas D. Otto, Chris Newbold, Matthew Berriman
ABACAS: algorithm-based automatic contiguation of assembled sequences. Bioinform. 25 (15) (2009)
Thomas D. Otto, Ana Carolina R. Guimarães, Wim M. Degrave, Antonio Basílio de Miranda
AnEnPi: identification and annotation of analogous enzymes. BMC Bioinform. 9 (2008)
Thomas D. Otto, Leonardo H. F. Gomes, Marcelo Alves-Ferreira, Antonio Basílio de Miranda, Wim M. Degrave
ReRep: Computational detection of repetitive sequences in genome survey sequences (GSS). BMC Bioinform. 9 (2008)
Thomas D. Otto, Andreas M. Thurnherr
Efficient algorithms for finding sills in digital topographic maps. Comput. Geosci. 33 (5) (2007)
Anke Meyer-Bäse, Thomas D. Otto, Thomas Martinetz, Dorothee Auer, Axel Wismüller
Model-Free Functional MRI Analysis Using Topographic Independent Component Analysis. ESANN (2003)