title: MSA-PAD: DNA multiple sequence alignment framework based on PFAM accessed domain information.
abstract: Here we present the MSA-PAD application, a DNA multiple sequence alignment framework that uses PFAM protein domain information to align DNA sequences encoding either single or multiple protein domains. MSA-PAD has two alignment options: gene and genome mode.
authors.affiliation: Istituto di Biomembrane e Bioenergetica and.
authors.forename: Bachir
authors.initials: B
authors.lastname: Balech
authors.affiliation: Istituto Tecnologie Biomediche, Consiglio Nazionale delle Ricerche, 70126 Bari, Italy.
authors.forename: Saverio
authors.initials: S
authors.lastname: Vicario
authors.affiliation: Istituto Nazionale di Fisica Nucleare, 70126 Bari, Italy and.
authors.forename: Giacinto
authors.initials: G
authors.lastname: Donvito
authors.affiliation: Istituto Nazionale di Fisica Nucleare, 70126 Bari, Italy and.
authors.forename: Alfonso
authors.initials: A
authors.lastname: Monaco
authors.affiliation: Istituto Nazionale di Fisica Nucleare, 70126 Bari, Italy and.
authors.forename: Pasquale
authors.initials: P
authors.lastname: Notarangelo
authors.affiliation: Istituto di Biomembrane e Bioenergetica and Dipartimento Bioscienze, Biotecnologie e Biofarmaceutica, University of Bari, 70126 Bari, Italy.
authors.forename: Graziano
authors.initials: G
authors.lastname: Pesole
mesh_terms: D004247:DNA / Q000235:genetics*; D016208:Databases, Factual; D015894:Genome, Human; D006801:Humans; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D016415:Sequence Alignment / Q000379:methods*; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software
chemical_list: D011506:Proteins; D004247:DNA