Follow
Jonathan E Allen
Title
Cited by
Cited by
Year
Genome sequence of the human malaria parasite Plasmodium falciparum
MJ Gardner, N Hall, E Fung, O White, M Berriman, RW Hyman, JM Carlton, ...
Nature 419 (6906), 498-511, 2002
53972002
The transcriptional landscape of the mammalian genome
P Carninci, T Kasukawa, S Katayama, J Gough, MC Frith, N Maeda, ...
science 309 (5740), 1559-1563, 2005
40742005
Automated eukaryotic gene structure annotation using EVidenceModeler and the Program to Assemble Spliced Alignments
BJ Haas, SL Salzberg, W Zhu, M Pertea, JE Allen, J Orvis, O White, ...
Genome biology 9, 1-22, 2008
24882008
Genome sequence and comparative analysis of the model rodent malaria parasite Plasmodium yoelii yoelii
JM Carlton, SV Angiuoli, BB Suh, TW Kooij, M Pertea, JC Silva, ...
Nature 419 (6906), 512-519, 2002
9032002
The Genome of the Basidiomycetous Yeast and Human Pathogen Cryptococcus neoformans
BJ Loftus, E Fung, P Roncaglia, D Rowley, P Amedeo, D Bruno, ...
Science 307 (5713), 1321-1324, 2005
8672005
Draft genome of the filarial nematode parasite Brugia malayi
E Ghedin, S Wang, D Spiro, E Caler, Q Zhao, J Crabtree, JE Allen, ...
Science 317 (5845), 1756-1760, 2007
7172007
Genome sequence of Theileria parva, a bovine pathogen that transforms lymphocytes
MJ Gardner, R Bishop, T Shah, EP De Villiers, JM Carlton, N Hall, Q Ren, ...
Science 309 (5731), 134-137, 2005
3892005
Sequence of Plasmodium falciparum chromosomes 2, 10, 11 and 14
MJ Gardner, SJ Shallom, JM Carlton, SL Salzberg, V Nene, A Shoaibi, ...
Nature 419 (6906), 531-534, 2002
2372002
Scalable metagenomic taxonomy classification using a reference genome database
SK Ames, DA Hysom, SN Gardner, GS Lloyd, MB Gokhale, JE Allen
Bioinformatics 29 (18), 2253-2260, 2013
2312013
JIGSAW: integration of multiple sources of evidence for gene prediction
JE Allen, SL Salzberg
Bioinformatics 21 (18), 3596-3603, 2005
2022005
Computational gene prediction using multiple sources of evidence
JE Allen, M Pertea, SL Salzberg
Genome research 14 (1), 142-148, 2004
1822004
Improved protein–ligand binding affinity prediction with structure-based deep fusion inference
D Jones, H Kim, X Zhang, A Zemla, G Stevenson, WFD Bennett, ...
Journal of chemical information and modeling 61 (4), 1583-1592, 2021
1772021
Predicting tumor cell line response to drug pairs with deep learning
F Xia, M Shukla, T Brettin, C Garcia-Cardona, J Cohn, JE Allen, S Maslov, ...
BMC bioinformatics 19, 71-79, 2018
1192018
FDA-ARGOS is a database with public quality-controlled reference genomes for diagnostic use and regulatory science
H Sichtig, T Minogue, Y Yan, C Stefan, A Hall, L Tallon, L Sadzewicz, ...
Nature communications 10 (1), 3313, 2019
1092019
JIGSAW, GeneZilla, and GlimmerHMM: puzzling out the features of human genes in the ENCODE regions
JE Allen, WH Majoros, M Pertea, SL Salzberg
Genome Biology 7, 1-13, 2006
1032006
Metagenomic analysis of the airborne environment in urban spaces
NA Be, JB Thissen, VY Fofanov, JE Allen, M Rojas, G Golovko, Y Fofanov, ...
Microbial Ecology 69, 346-355, 2015
1002015
Detection of antimicrobial resistance genes associated with the International Space Station environmental surfaces
C Urbaniak, AC Sielaff, KG Frey, JE Allen, N Singh, C Jaing, K Wheeler, ...
Scientific reports 8 (1), 814, 2018
992018
nGASP–the nematode genome annotation assessment project
A Coghlan, TJ Fiedler, SJ McKay, P Flicek, TW Harris, D Blasiar, ...
BMC bioinformatics 9, 1-13, 2008
792008
Whole metagenome profiles of particulates collected from the International Space Station
NA Be, A Avila-Herrera, JE Allen, N Singh, A Checinska Sielaff, C Jaing, ...
Microbiome 5, 1-19, 2017
762017
Ancient pathogen DNA in archaeological samples detected with a Microbial Detection Array
AM Devault, K McLoughlin, C Jaing, S Gardner, TM Porter, JM Enk, ...
Scientific reports 4 (1), 4245, 2014
732014
The system can't perform the operation now. Try again later.
Articles 1–20