About: 2HybridTools, a handy software to facilitate clone identification and mutation mapping from yeast two-hybrid screening

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About: 2HybridTools, a handy software to facilitate clone identification and mutation mapping from yeast two-hybrid screening Goto Sponge NotDistinct Permalink

An Entity of Type : schema:ScholarlyArticle, within Data Space : wasabi.inria.fr associated with source document(s)

Attributes	Values
type	Academic Article research paper schema:ScholarlyArticle
isDefinedBy	Covid-on-the-Web dataset
has title	2HybridTools, a handy software to facilitate clone identification and mutation mapping from yeast two-hybrid screening
Creator	Lécine, Patrick Cauchy, Pierre Ferrier, Pierre Imbert, Jean Kahn-Perlès, Brigitte Dinesh-Kumar, Savithramma
Source	PMC
abstract	Yeast Two-Hybrid (Y2H) and reverse Two-Hybrid (RY2H) are powerful protein–protein interaction screening methods that rely on the interaction of bait and prey proteins fused to DNA binding (DB) and activation domains (AD), respectively. Y2H allows identification of protein interaction partners using screening libraries, while RY2H is used to determine residues critical to a given protein–protein interaction by exploiting site-directed mutagenesis. Currently, both these techniques still rely on sequencing of positive clones using conventional Sanger sequencing. For Y2H, a screen can yield several positives; the identification of such clones is further complicated by the fact that sequencing products usually contain vector sequence. For RY2H, obtaining a complete sequence is required to identify the full range of residues involved in protein–protein interactions. However, with Sanger sequencing limited to 500–800 nucleotides, sequencing is usually carried from both ends for clones greater than this length. Analysis of such RY2H data thus requires assembly of sequencing products combined with trimming of vector sequences and of low-quality bases at the beginning and ends of sequencing products. Further, RY2H analysis requires collation of mutations that abrogate a DB/AD interaction. Here, we present 2HybridTools, a Java program with a user-friendly interface that allows addressing all these issues inherent to both Y2H and RY2H. Specifically, for Y2H, 2HybridTools enables automated identification of positive clones, while for RY2H, 2HybridTools provides detailed mutation reports as a basis for further investigation of given protein–protein interactions.
has issue date	2019-07-03(xsd:dateTime)
bibo:doi	10.7717/peerj.7245
bibo:pmid	31309003
has license	cc-by
schema:url	https://doi.org/10.7717/peerj.7245
resource representing a document's title	2HybridTools, a handy software to facilitate clone identification and mutation mapping from yeast two-hybrid screening
has PubMed Central identifier	PMC6612259
has PubMed identifier	31309003
schema:publication	PeerJ
resource representing a document's body	covid:PMC6612259#body_text
is schema:about of	named entity 'SOFTWARE' named entity 'MAPPING' named entity 'IDENTIFICATION' named entity 'CLONE' named entity 'MUTATION' named entity 'TWO-HYBRID SCREENING' named entity 'YEAST TWO-HYBRID' named entity 'mutation' named entity 'yeast two-hybrid screening' named entity 'clone' named entity 'cDNA' named entity 'IUPAC' named entity 'protein sequence' named entity 'Bruckner' named entity 'BioJava' named entity 'multiple sequences' named entity 'protein' named entity 'colon' named entity 'Y2H' named entity 'C-termini' named entity 'cDNA libraries' named entity 'software suite' named entity 'JRE' named entity 'cloning' named entity 'N-terminus' named entity 'DNA sequences' named entity '3D structures' named entity 'viral replication' named entity 'FASTA' named entity 'protein' named entity 'C-terminus' named entity 'protein' named entity 'Halladay' named entity 'translational research' named entity 'clone' named entity 'fluorescence resonance energy transfer' named entity 'Chemistry' named entity 'protein-protein interactions' named entity 'FASTA' named entity 'C-Terminus' named entity 'Kozak' named entity 'Protein Analysis' named entity 'N-terminus' named entity 'SP1' named entity 'Y2H' named entity 'codons' named entity 'Lohse' named entity 'substitution matrix' named entity 'uracil' named entity 'alleles' named entity 'ORF' named entity 'protein' named entity 'Valine' named entity 'C- terminus' named entity 'mutagenesis' named entity 'clones' named entity 'NCBI' named entity 'codon' named entity 'amino acid' named entity 'protein sequence' named entity 'protein' named entity 'TFs' named entity 'Smith-Waterman' named entity 'yeast cells' named entity 'interact' named entity 'substitution matrix' named entity 'protein-protein interaction' named entity 'reading frame' named entity 'interactome' named entity 'FASTA' named entity 'multiple sequences' named entity 'CAP3' named entity 'protein-protein interactions' named entity 'cDNA' named entity 'vector DNA' named entity 'transcription factors' named entity 'protein'

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