Research Tools

^{_{As a crucial component of GeneTex’s antibody development program, the R&D team assiduously reviews the pertinent literature in conjunction with other biomedical research media and has bookmarked a collection of useful online tools. Like NCBI, Ensembl, and UniProt, these sites are of great value to the entire research community. We are happy to provide this listing.}}

BLAST

^{blastp: blast protein sequence in protein databases (NCBI).}

^{tblastn: blast protein sequence in translated nucleotide databases (NCBI).}

^{blastn: blast nucleotide sequence in nucleotide databases (NCBI).}

^{blastx: blast translated nucleotide sequence in protein databases (NCBI).}

^{SMARTBLAST: search a protein query against 27 genomes spanning a wide taxonomic range for homolog analysis (NCBI).}

Sequence Analysis

^{ScanProsite: identify protein families, domains, functional sites, and modifications.}

^{Compute pI/Mw: compute theoretical isoelectric point and molecular weight of a given protein sequence (ExPASy).}

^{Three-/ one-letter code: convert three letter translations to one letter translations and inversely.}

^{EMBOSS Transeq: translate DNA or RNA to the corresponding peptide sequence in various frame settings (EMBL-EBI).}

^{EMBOSS Backtranseq: reads a protein sequence and writes the nucleic acid sequence it is most likely to have come from (EMBL-EBI).}

Alignment

^{COBALT: align two or more protein sequences (NCBI).}

^{Clustal Omega: align three or more protein/DNA/RNA sequences (EMBL-EBI).}

^{MUSCLE: align multiple protein/DNA sequences (EMBL-EBI).}

Expression Pattern

^{The Human Protein Atlas: shows expression profiles of human genes and proteins across major organs, tissues, and cell lines.}

^{Expression Atlas: gene expression across species and biological conditions.}

^{LifeMap Discovery: compendium of information/tools related to embryonic and differentiated cells and tissues.}

Primer Design

^{Primer3: pick primers from a DNA sequence with intended primer size, Tm, and GC%.}

^{Primer-BLAST: check specificity of a primer pair.}

^{Primer analysis: analyze Tm, length, GC%, and MW of a primer sequence in basic or special salt conditions.}

3D Structure Modeling

^{SWISS-MODEL: model protein 3D structure by entering a protein sequence.}