Danny Rice
Danny Rice
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Detecting protein function and protein-protein interactions from genome sequences
EM Marcotte, M Pellegrini, HL Ng, DW Rice, TO Yeates, D Eisenberg
Science 285 (5428), 751-753, 1999
DIP: the database of interacting proteins
I Xenarios, DW Rice, L Salwinski, MK Baron, EM Marcotte, D Eisenberg
Nucleic acids research 28 (1), 289-291, 2000
The draft genome of the transgenic tropical fruit tree papaya (Carica papaya Linnaeus)
R Ming, S Hou, Y Feng, Q Yu, A Dionne-Laporte, JH Saw, P Senin, ...
Nature 452 (7190), 991-996, 2008
Insights into the Evolution of Mitochondrial Genome Size from Complete Sequences of Citrullus lanatus and Cucurbita pepo (Cucurbitaceae)
AJ Alverson, XX Wei, DW Rice, DB Stern, K Barry, JD Palmer
Molecular biology and evolution 27 (6), 1436-1448, 2010
Horizontal transfer of entire genomes via mitochondrial fusion in the angiosperm Amborella
DW Rice, AJ Alverson, AO Richardson, GJ Young, MV Sanchez-Puerta, ...
Science 342 (6165), 1468-1473, 2013
Origins and recombination of the bacterial-sized multichromosomal mitochondrial genome of cucumber
AJ Alverson, DW Rice, S Dickinson, K Barry, JD Palmer
The Plant Cell 23 (7), 2499-2513, 2011
Genome-scale data, angiosperm relationships, and ‘ending incongruence’: a cautionary tale in phylogenetics
DE Soltis, VA Albert, V Savolainen, K Hilu, YL Qiu, MW Chase, JS Farris, ...
Trends in plant science 9 (10), 477-483, 2004
Localized hypermutation and associated gene losses in legume chloroplast genomes
AM Magee, S Aspinall, DW Rice, BP Cusack, M Sémon, AS Perry, ...
Genome research 20 (12), 1700-1710, 2010
A 3D-1D substitution matrix for protein fold recognition that includes predicted secondary structure of the sequence
DW Rice, D Eisenberg
Journal of molecular biology 267 (4), 1026-1038, 1997
Miniaturized mitogenome of the parasitic plant Viscum scurruloideum is extremely divergent and dynamic and has lost all nad genes
E Skippington, TJ Barkman, DW Rice, JD Palmer
Proceedings of the National Academy of Sciences 112 (27), E3515-E3524, 2015
Assessing the performance of fold recognition methods by means of a comprehensive benchmark
D Fischer, A Elofsson, D Rice, D Eisenberg
Pac Symp Biocomput 97, 300-318, 1996
An exceptional horizontal gene transfer in plastids: gene replacement by a distant bacterial paralog and evidence that haptophyte and cryptophyte plastids are sisters
DW Rice, JD Palmer
BMC biology 4 (1), 1-15, 2006
The “fossilized” mitochondrial genome of Liriodendron tulipifera: ancestral gene content and order, ancestral editing sites, and extraordinarily low mutation rate
AO Richardson, DW Rice, GJ Young, AJ Alverson, JD Palmer
BMC biology 11 (1), 1-17, 2013
Long branch attraction, taxon sampling, and the earliest angiosperms: Amborella or monocots?
S Stefanović, DW Rice, JD Palmer
BMC Evolutionary Biology 4, 1-19, 2004
The mitochondrial genome of the legume Vigna radiata and the analysis of recombination across short mitochondrial repeats
AJ Alverson, S Zhuo, DW Rice, DB Sloan, JD Palmer
PLoS one 6 (1), e16404, 2011
Evolutionary Genetics of Cytoplasmic Incompatibility Genes cifA and cifB in Prophage WO of Wolbachia
ARI Lindsey, DW Rice, SR Bordenstein, AW Brooks, SR Bordenstein, ...
Genome biology and evolution 10 (2), 434-451, 2018
Assigning amino acid sequences to 3‐dimensional protein folds
D Fischer, D Rice, JU Bowie, D Eisenberg
The FASEB journal 10 (1), 126-136, 1996
The 1.5-. ANG. crystal structure of plastocyanin from the green alga Chlamydomonas reinhardtii
MR Redinbo, D Cascio, MK Choukair, D Rice, S Merchant, TO Yeates
Biochemistry 32 (40), 10560-10567, 1993
Castor bean organelle genome sequencing and worldwide genetic diversity analysis
M Rivarola, JT Foster, AP Chan, AL Williams, DW Rice, X Liu, ...
PloS one 6 (7), e21743, 2011
A study of combined structure/sequence profiles
A Elofsson, D Fischer, DW Rice, SM Le Grand, D Eisenberg
Folding and Design 1 (6), 451-461, 1996
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