CLEANUP: a fast computer program for removing redundancies from nucleotide sequence databases release_n2ib27dv55eqlhyi4i2dx6xin4

by Giorgio Grillo, Marcella Attimonelli, Sabino Liuni, Graziano Pesole

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Duplicates, redundancies and inconsistencies in the primary nucleotide databases: a descriptive study
Qingyu Chen, Justin Zobel, Karin Verspoor
2017   Database: The Journal of Biological Databases and Curation
doi:10.1093/database/baw163  pmcid:PMC5225397  pmid:28077566 
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DIME: A Novel Framework for De Novo Metagenomic Sequence Assembly
Xuan Guo, Ning Yu, Xiaojun Ding, Jianxin Wang, Yi Pan
2015   Journal of Computational Biology
doi:10.1089/cmb.2014.0251  pmcid:PMC4326031  pmid:25684202 
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Mountain Pygmies of Western New Guinea: A Morphological and Molecular Approach
M. Tommaseo-Ponzetta, S. Mona, F. Calabrese, G. Konrad, E. Vacca, M. Attimonelli
2013   Human Biology: The Official Publication of the American Association of Anthropological Genetics
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Searching for IRES
S. D. Baird
2006   RNA: A publication of the RNA Society
doi:10.1261/rna.157806  pmcid:PMC1581980  pmid:16957278 
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Compositional Gene Landscapes in Vertebrates
S. Cruveiller
2004   Genome Research
doi:10.1101/gr.2246704  pmcid:PMC479116  pmid:15123586 
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Using the miraEST Assembler for Reliable and Automated mRNA Transcript Assembly and SNP Detection in Sequenced ESTs
B. Chevreux
2004   Genome Research
doi:10.1101/gr.1917404  pmcid:PMC419793  pmid:15140833 
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Integrating Genomics, Bioinformatics, and Classical Genetics to Study the Effects of Recombination on Genome Evolution
John A. Birdsell
2002   Molecular biology and evolution
doi:10.1093/oxfordjournals.molbev.a004176  pmid:12082137 

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Translational Selection on Codon Usage in Xenopus laevis
Héctor Musto, Stéphane Cruveiller, Giuseppe D'Onofrio, Héctor Romero, Giorgio Bernardi
2001   Molecular biology and evolution
doi:10.1093/oxfordjournals.molbev.a003958  pmid:11504850 

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GBuilder---An Application for the Visualization and Integration of EST Cluster Data
J. Muilu
2001   Genome Research
doi:10.1101/gr.157501  pmcid:PMC311012  pmid:11156627 
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Microsatellites in Different Eukaryotic Genomes: Survey and Analysis
G. Toth
2000   Genome Research
doi:10.1101/gr.10.7.967  pmcid:PMC310925  pmid:10899146 
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d2_cluster: A Validated Method for Clustering EST and Full-Length cDNA Sequences
J. Burke
1999   Genome Research
doi:10.1101/gr.9.11.1135  pmcid:PMC310833  pmid:10568753 
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UTRdb: a specialized database of 5' and 3' untranslated regions of eukaryotic mRNAs
G. Pesole, S. Liuni, G. Grillo, M. Ippedico, A. Larizza, W. Makalowski, C. Saccone
1999   Nucleic Acids Research
doi:10.1093/nar/27.1.188  pmcid:PMC148131  pmid:9847176 

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Alternative Gene Form Discovery and Candidate Gene Selection from Gene Indexing Projects
John Burke, Hui Wang, Winston Hide, Daniel B. Davison
1998   Genome Research
doi:10.1101/gr.8.3.276  pmcid:PMC310695  pmid:9521931 
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Distribution of genes in the genome of Arabidopsis thaliana and its implications for the genome organization of plants
A. Barakat, G. Matassi, G. Bernardi
1998   Proceedings of the National Academy of Sciences of the United States of America
doi:10.1073/pnas.95.17.10044  pmcid:PMC21458  pmid:9707597 
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Removing near-neighbour redundancy from large protein sequence collections
L. Holm, C. Sander
1998   Bioinformatics
doi:10.1093/bioinformatics/14.5.423  pmid:9682055 
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GeneUp: A Program to Select Short PCR Primer Pairs that Occur in Multiple Members of Sequence Lists
G. Pesole, S. Liuni, G. Grillo, P. Belichard, T. Trenkle, J. Welsh, M. McClelland
1998   BioTechniques
doi:10.2144/98251bc02  pmid:9668985 
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