Martin C. Frith

Publication Activity (10 Years)

Years Active: 1998-2023
Publications (10 Years): 9

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IEEE ACM Trans. Comput. Biol. Bioinform.

Publications

Martin C. Frith, Jim Shaw, John L. Spouge
How to optimally sample a sequence for rapid analysis. Bioinform. 39 (2) (2023)
Yin Yao, Martin C. Frith
Improved DNA-Versus-Protein Homology Search for Protein Fossils. IEEE ACM Trans. Comput. Biol. Bioinform. 20 (3) (2023)
Yin Yao, Martin C. Frith
Improved DNA-versus-Protein Homology Search for Protein Fossils. AlCoB (2021)
Martin C. Frith, Laurent Noé, Gregory Kucherov
Minimally overlapping words for sequence similarity search. Bioinform. 36 (22-23) (2021)
Martin C. Frith
How sequence alignment scores correspond to probability models. Bioinform. 36 (2) (2020)
Martin C. Frith, Anish Man Singh Shrestha
A Simplified Description of Child Tables for Sequence Similarity Search. IEEE ACM Trans. Comput. Biol. Bioinform. 15 (6) (2018)
Thomas M. Poulsen, Martin C. Frith
Variable-order sequence modeling improves bacterial strain discrimination for Ion Torrent DNA reads. BMC Bioinform. 18 (1) (2017)
Michiaki Hamada, Yukiteru Ono, Kiyoshi Asai, Martin C. Frith
Training alignment parameters for arbitrary sequencers with LAST-TRAIN. Bioinform. 33 (6) (2017)
Sergey Sheetlin, Yonil Park, Martin C. Frith, John L. Spouge
-values. Bioinform. 32 (2) (2016)
Josep Basha Gutierrez, Martin C. Frith, Kenta Nakai
A Genetic Algorithm for Motif Finding Based on Statistical Significance. IWBBIO (1) (2015)
Sergey L. Sheetlin, Yonil Park, Martin C. Frith, John L. Spouge
Frameshift alignment: statistics and post-genomic applications. Bioinform. 30 (24) (2014)
The Fantom Consortium, RIKEN PMII, RIKEN CLST (DGT), Alistair R. R. Forrest, Hideya Kawaji, Michael Rehli, J. Kenneth Baillie, Michiel J. L. de Hoon, Vanja Haberle, Timo Lassmann, Ivan V. Kulakovskiy, Marina Lizio, Masayoshi Itoh, Robin Andersson, Christopher J. Mungall, Terrence F. Meehan, Sebastian Schmeier, Nicolas Bertin, Mette Jørgensen, Emmanuel Dimont, Erik Arner, Christian Schmidl, Ulf Schaefer, Yulia A. Medvedeva, Charles Plessy, Morana Vitezic, Jessica Severin, Colin A. M. Semple, Yuri Ishizu, Robert S. Young, Margherita Francescatto, Intikhab Alam, Davide Albanese, Gabriel M. Altschuler, Takahiro Arakawa, John A. C. Archer, Peter Arner, Magda Babina, Sarah Rennie, Piotr J. Balwierz, Anthony G. Beckhouse, Swati Pradhan-Bhatt, Judith A. Blake, Antje Blumenthal, Beatrice Bodega, Alessandro Bonetti, James Briggs, Frank Brombacher, A. Maxwell Burroughs, Andrea Califano, Carlo V. Cannistraci, Daniel Carbajo, Yun Chen, Marco Chierici, Yari Ciani, Hans Clevers, Emiliano Dalla, Carrie A. Davis, Michael Detmar, Alexander D. Diehl, Taeko Dohi, Finn Drabløs, Albert S. B. Edge, Matthias Edinger, Karl Ekwall, Mitsuhiro Endoh, Hideki Enomoto, Michela Fagiolini, Lynsey Fairbairn, Hai Fang, Mary C. Farach-Carson, Geoffrey J. Faulkner, Alexander V. Favorov, Malcolm E. Fisher, Martin C. Frith, Rie Fujita, Shiro Fukuda, Cesare Furlanello, Masaaki Furuno, Jun-ichi Furusawa, Teunis B. Geijtenbeek, Andrew P. Gibson, Thomas R. Gingeras, Daniel Goldowitz, Julian Gough, Sven Guhl, Reto Guler, Stefano Gustincich, Thomas J. Ha, Masahide Hamaguchi, Mitsuko Hara, Matthias Harbers, Jayson Harshbarger, Akira Hasegawa, Yuki Hasegawa, Takehiro Hashimoto, Meenhard Herlyn, Kelly J. Hitchens, Shannan J. Ho Sui, Oliver M. Hofmann, Ilka Hoof, Fumi Hori, Lukasz Huminiecki, Kei Iida, Tomokatsu Ikawa, Boris R. Jankovic, Hui Jia, Anagha Joshi, Giuseppe Jurman, Bogumil Kaczkowski, Chieko Kai, Kaoru Kaida, Ai Kaiho, Kazuhiro Kajiyama, Mutsumi Kanamori-Katayama, Artem S. Kasianov, Takeya Kasukawa, Shintaro Katayama, Sachi Kato, Shuji Kawaguchi, Hiroshi Kawamoto, Yuki I. Kawamura, Tsugumi Kawashima, Judith S. Kempfle, Tony J. Kenna, Juha Kere, Levon M. Khachigian, Toshio Kitamura, S. Peter Klinken, Alan J. Knox, Miki Kojima, Soichi Kojima, Naoto Kondo, Haruhiko Koseki, Shigeo Koyasu, Sarah Krampitz, Atsutaka Kubosaki, Andrew T. Kwon, Jeroen F. J. Laros, Weonju Lee, Andreas Lennartsson, Kang Li, Berit Lilje, Leonard Lipovich, Alan Mackay-Sim, Ri-ichiroh Manabe, Jessica C. Mar, Benoit Marchand, Anthony Mathelier, Niklas Mejhert, Alison M. Meynert, Yosuke Mizuno, David A. de Lima Morais, Hiromasa Morikawa, Mitsuru Morimoto, Kazuyo Moro, Efthymios Motakis, Hozumi Motohashi, Christine Mummery, Mitsuyoshi Murata, Sayaka Nagao-Sato, Yutaka Nakachi, Fumio Nakahara, Toshiyuki Nakamura, Yukio Nakamura, Kenichi Nakazato, Erik van Nimwegen, Noriko Ninomiya, Hiromi Nishiyori, Shohei Noma, Tadasuke Nozaki, Soichi Ogishima, Naganari Ohkura, Hiroko Ohmiya, Hiroshi Ohno, Mitsuhiro Ohshima, Mariko Okada-Hatakeyama, Yasushi Okazaki, Valerio Orlando, Dmitry A. Ovchinnikov, Arnab Pain, Robert Passier, Margaret Patrikakis, Helena Persson, Silvano Piazza, James G. D. Prendergast, Owen J. L. Rackham, Jordan A. Ramilowski, Mamoon Rashid, Timothy Ravasi, Patrizia Rizzu, Marco Roncador, Sugata Roy, Morten B. Rye, Eri Saijyo, Antti Sajantila, Akiko Saka, Shimon Sakaguchi, Mizuho Sakai, Hiroki Sato, Hironori Sato, Suzana Savvi, Alka Saxena, Claudio Schneider, Erik A. Schultes, Gundula G. Schulze-Tanzil, Anita Schwegmann, Thierry Sengstag, Guojun Sheng, Hisashi Shimoji, Yishai Shimoni, Jay W. Shin, Christophe Simon, Daisuke Sugiyama, Takaaki Sugiyama, Masanori Suzuki, Naoko Suzuki, Rolf K. Swoboda, Peter A. C. 't Hoen, Michihira Tagami, Naoko Takahashi, Jun Takai, Hiroshi Tanaka, Hideki Tatsukawa, Zuotian Tatum, Mark Thompson, Hiroo Toyoda, Tetsuro Toyoda, Eivind Valen, Marc van de Wetering, Linda M. van den Berg, Roberto Verardo, Dipti Vijayan, Ilya E. Vorontsov, Wyeth W. Wasserman, Shoko Watanabe, Christine A. Wells, Louise N. Winteringham, Ernst Wolvetang, Emily J. Wood, Yoko Yamaguchi, Masayuki Yamamoto, Misako Yoneda, Yohei Yonekura, Shigehiro Yoshida, Susan E. Zabierowski, Peter G. Zhang, Xiaobei Zhao, Silvia Zucchelli, Kim M. Summers, Harukazu Suzuki, Carsten O. Daub, Jun Kawai, Peter Heutink, Winston Hide, Tom C. Freeman, Boris Lenhard, Vladimir B. Bajic, Martin S. Taylor, Vsevolod J. Makeev, Albin Sandelin, David A. Hume, Piero Carninci, Yoshihide Hayashizaki
A promoter-level mammalian expression atlas. Nat. 507 (7493) (2014)
Anish Man Singh Shrestha, Martin C. Frith, Paul Horton
A bioinformatician's guide to the forefront of suffix array construction algorithms. Briefings Bioinform. 15 (2) (2014)
Anish Man Singh Shrestha, Martin C. Frith
An approximate Bayesian approach for mapping paired-end DNA reads to a reference genome. Bioinform. 29 (8) (2013)
Edward Wijaya, Martin C. Frith, Kiyoshi Asai, Paul Horton
RecountDB: a database of mapped and count corrected transcribed sequences. Nucleic Acids Res. 40 (Database-Issue) (2012)
Kazutaka Katoh, Martin C. Frith
Adding unaligned sequences into an existing alignment using MAFFT and LAST. Bioinform. 28 (23) (2012)
Michiaki Hamada, Koichiro Yamada, Kengo Sato, Martin C. Frith, Kiyoshi Asai
CentroidHomfold-LAST: accurate prediction of RNA secondary structure using automatically collected homologous sequences. Nucleic Acids Res. 39 (Web-Server-Issue) (2011)
Michiaki Hamada, Edward Wijaya, Martin C. Frith, Kiyoshi Asai
Probabilistic alignments with quality scores: an application to short-read mapping toward accurate SNP/indel detection. Bioinform. 27 (22) (2011)
Martin C. Frith, Michiaki Hamada, Paul Horton
Parameters for accurate genome alignment. BMC Bioinform. 11 (2010)
Edward Wijaya, Jean-François Pessiot, Martin C. Frith, Wataru Fujibuchi, Kiyoshi Asai, Paul Horton
In search of true reads: A classification approach to next generation sequencing data selection. BIBM Workshops (2010)
Timothy L. Bailey, Mikael Bodén, Fabian A. Buske, Martin C. Frith, Charles E. Grant, Luca Clementi, Jingyuan Ren, Wilfred W. Li, William Stafford Noble
MEME SUITE: tools for motif discovery and searching. Nucleic Acids Res. 37 (Web-Server-Issue) (2009)
Martin C. Frith, Neil F. W. Saunders, Bostjan Kobe, Timothy L. Bailey
Discovering Sequence Motifs with Arbitrary Insertions and Deletions. PLoS Comput. Biol. 4 (5) (2008)
Kazuro Shimokawa, Yuko Okamura-Oho, Takio Kurita, Martin C. Frith, Jun Kawai, Piero Carninci, Yoshihide Hayashizaki
Large-scale clustering of CAGE tag expression data. BMC Bioinform. 8 (2007)
Peter M. Haverty, Martin C. Frith, Zhiping Weng
CARRIE web service: automated transcriptional regulatory network inference and interactive analysis. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Yutao Fu, Martin C. Frith, Peter M. Haverty, Zhiping Weng
MotifViz: an analysis and visualization tool for motif discovery. Nucleic Acids Res. 32 (Web-Server-Issue) (2004)
Zhenjun Hu, Martin C. Frith, Tianhua Niu, Zhiping Weng
SeqVISTA: a graphical tool for sequence feature visualization and comparison. BMC Bioinform. 4 (2003)
Yvonne J. K. Edwards, Tim J. Carver, Tanya Vavouri, Martin C. Frith, Martin J. Bishop, Greg Elgar
Theatre: a software tool for detailed comparative analysis and visualization of genomic sequence. Nucleic Acids Res. 31 (13) (2003)
Martin C. Frith, Michael C. Li, Zhiping Weng
Cluster-Buster: finding dense clusters of motifs in DNA sequences. Nucleic Acids Res. 31 (13) (2003)
Martin C. Frith, Ulla Hansen, Zhiping Weng
Detection of cis -element clusters in higher eukaryotic DNA. Bioinform. 17 (10) (2001)
Yvonne J. K. Edwards, Martin C. Frith, Greg Elgar, Martin J. Bishop
Theatre: A Novel Tool For The Comparative Investigation and Display of Evolutionary Diversity of Functional and Structural Features in DNA Sequences. German Conference on Bioinformatics (1998)