> Tag > Links tagged with 'polymerase chain reaction'

Links tagged with 'polymerase chain reaction'

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Found 29 links

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AcromineTool Content

http://www.nactem.ac.uk/software/acromine/ [open in a new window]

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Literature > Text Mining and Semantics

Acromine is an tool that finds full forms of acronyms that appear in MEDLINE.

This content is being maintained by pthompson.

links directory index: 12
TitlePublication YearGoogle Scholar Citation Count
Building a high-quality sense inventory for improved abbreviation disambiguation201012
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tagsalgorithms automatic acronym expansion bibliographic databases cluster analysis computational biology dictionaries as topic medline natural language processing polymerase chain reaction reproducibility of results statistical models x-ray computed tomography
setsUniversity of Manchester

Acromine DisambiguatorTool Content

http://www.nactem.ac.uk/software/acromine_disambiguation/ [open in a new window]

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Literature > Text Mining and Semantics

Given a biomedical text, Acromine Disambiguator correctly predicts expanded full forms of acronoyms appearing in the text. As acronyms appearing in biomedical texts are often ambiguous, such a disambiguation process is important to ensure the correct interpretation of the text.

This content is being maintained by pthompson.

links directory index: 12
TitlePublication YearGoogle Scholar Citation Count
Building a high-quality sense inventory for improved abbreviation disambiguation201012
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tagsalgorithms automatic acronym disambiguation automatic acronym expansion bibliographic databases cluster analysis computational biology dictionaries as topic medline natural language processing polymerase chain reaction reproducibility of results statistical models x-ray computed tomography
setsUniversity of Manchester

Assembly PCR Oligo MakerTool Content

http://publish.yorku.ca/~pjohnson/AssemblyPCRoligomaker.html [open in a new window]

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DNA > Tools For the Bench

Assembly PCR Oligo Maker is a tool for designing oligodeoxynucleotides for the PCR based construction of long DNA molecules.

links directory index: 24
TitlePublication YearGoogle Scholar Citation Count
Assembly PCR oligo maker: a tool for designing oligodeoxynucleotides for constructing long DNA molecules for RNA production200524
NAR Web Server Issue 2005
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tagsdna oligodeoxyribonucleotides polymerase chain reaction rna synthetic genes

BiQ Analyzer HTTool Content

http://biq-analyzer-ht.bioinf.mpi-inf.mpg.de/ [open in a new window]

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DNA > DNA and Genomic Analysis

BiQ Analyzer HT Is a tool that supports locus specific analysis and visualization of high-throughput bisulfite sequencing data. It facilitates analysis of locus specific DNA methylation patterns.

links directory index: 225
TitlePublication YearGoogle Scholar Citation Count
BiQ Analyzer HT: locus-specific analysis of DNA methylation by high-throughput bisulfite sequencing20114
BiQ Analyzer: visualization and quality control for DNA methylation data from bisulfite sequencing2005221
NAR Web Server Issue 2011
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tagsdna dna methylation dna sequence analysis genetic loci high-throughput nucleotide sequencing polymerase chain reaction sequence alignment sulfites

DePIETool Content

http://biocore.unl.edu/primer/primerPI.html [open in a new window]

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DNA > Tools For the Bench
Protein > Networks & Interactions, Pathways and Enzymes

Design Primers for Protein Interaction Experiments (DePIE) is a web-based primer design tool for protein interaction experiments.

links directory index: 4
TitlePublication YearGoogle Scholar Citation Count
DePIE: Designing Primers for Protein Interaction Experiments20034
NAR Web Server Issue 2003
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tagsdna primers nucleic acid databases nucleic acid denaturation polymerase chain reaction protein databases protein sorting signals proteins sequence analysis tertiary protein structure two-hybrid system techniques yeasts

DyNAVacSTool Content

http://miracle.igib.res.in/dynavac/ [open in a new window]

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DNA > Tools For the Bench
Human Genome > Health and Disease

DyNAVacS is a tool for designing DNA vaccines that includes steps for chosing a suitable expression vector, ensuring optimal expression by codon optimization, engineering CpG motifs for enhancing immune responses, and providing additional sequence signals for efficient translation. It also allows includes restriction enzyme mapping and design of primers spanning user specified sequences.

links directory index: 11
TitlePublication YearGoogle Scholar Citation Count
DyNAVacS: an integrative tool for optimized DNA vaccine design200611
NAR Web Server Issue 2006
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tagscodon computational biology cpg islands dna primers dna vaccines drug design gene expression polymerase chain reaction restriction mapping systems integration

Electronic PCRDatabase Content

http://www.ncbi.nlm.nih.gov/sutils/e-pcr [open in a new window]

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DNA > Tools For the Bench

Find sequence-based markers (STSs) and therefore, map location in a DNA sequence of interest; useful for detecting mis-priming events.

links directory index: 242
TitlePublication YearGoogle Scholar Citation Count
A web server for performing electronic PCR200418
Sequence mapping by electronic PCR1997224
NAR Web Server Issue 2004
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tagsalgorithms base sequence chromosome mapping computational biology dna primers dna sequence analysis factual databases human chromosomes humans molecular sequence data nucleic acid databases polymerase chain reaction sequence alignment sequence tagged sites

GeMprospectorTool Content

http://cgi-www.daimi.au.dk/cgi-chili/GeMprospector/main [open in a new window]

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DNA > Tools For the Bench
Expression > cDNA, EST, SAGE
Model Organisms > Plants

GeMprospector is designed to find cross-species genetic marker candidates in legumes and grasses. GeMprospector automates PCR primer design based on multiple sequence alignments of submitted ESTs and their homologues in sequence databases from legumes or grasses.

links directory index: 19
TitlePublication YearGoogle Scholar Citation Count
GeMprospector--online design of cross-species genetic marker candidates in legumes and grasses200619
NAR Web Server Issue 2006
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tagsbase sequence conserved sequence dna primers expressed sequence tags fabaceae genetic markers genetic polymorphism genomics nucleic acid databases poaceae polymerase chain reaction sequence alignment

GenefisherTool Content

http://bibiserv.techfak.uni-bielefeld.de/genefisher/ [open in a new window]

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DNA > Tools For the Bench

Interactive primer design tool for standard or degenerate primers; will accept unaligned sequences.

links directory index: 121
TitlePublication YearGoogle Scholar Citation Count
GeneFisher--software support for the detection of postulated genes1996121
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tagsalgorithms dna primers dna sequence analysis polymerase chain reaction

GLUE, GLUE-IT, PEDEL, PEDEL-AA and DRIVeRTool Content

http://guinevere.otago.ac.nz/stats.html [open in a new window]

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DNA > Tools For the Bench

GLUE, PEDEL, and DRIVeR are tools for estimating completeness and diversity in randomized protein-encoding libraries; useful for guiding library design and for analyzing results. GLUE Including Translation (GLUE-IT) finds the expected amino acid completeness of libraries. PEDEL-AA calculates amino acid statistics for libraries generated by epPCR.

links directory index: 122
TitlePublication YearGoogle Scholar Citation Count
GLUE-IT and PEDEL-AA: new programmes for analyzing protein diversity in randomized libraries200826
Statistics of protein library construction200528
User-friendly algorithms for estimating completeness and diversity in randomized protein-encoding libraries200368
NAR Web Server Issue 2008
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tagsalgorithms chemical models codon computer simulation directed molecular evolution dna dna mutational analysis dna sequence analysis gene library genetic models genetic variation molecular evolution mutagenesis mutation peptide library point mutation polymerase chain reaction protein sequence analysis proteins statistical models

Institute of Enzymology ServersTool Content

http://www.enzim.hu/index.php?option=com_content&task=blogcategory&id=30&Itemid=... [open in a new window]

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Protein > 2-D Structure Prediction
Protein > 3-D Structure Prediction
Protein > Localization and Targeting

A set of severs developed by the Institute of Enzymology that includes tools for transmembrane protein structure prediction and structural analyses.

links directory index: 2004
TitlePublication YearGoogle Scholar Citation Count
TMDET: web server for detecting transmembrane regions of proteins by using their 3D coordinates200546
IUPred: web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content2005392
The pairwise energy content estimated from amino acid composition discriminates between folded and intrinsically unstructured proteins2005235
BiSearch: primer-design and search tool for PCR on bisulfite-treated genomes200552
PDB_TM: selection and membrane localization of transmembrane proteins in the protein data bank2005138
Transmembrane proteins in the Protein Data Bank: identification and classification2004138
Locating the stabilizing residues in (alpha/beta)8 barrel proteins based on hydrophobicity, long-range interactions, and sequence conservation200443
SCide: identification of stabilization centers in proteins.20030
Servers for sequence-structure relationship analysis and prediction20035
On filtering false positive transmembrane protein predictions200257
The HMMTOP transmembrane topology prediction server.20010
Principles governing amino acid composition of integral membrane proteins: application to topology prediction1998795
Stabilization centers in proteins: identification, characterization and predictions1997103
NAR Web Server Issue 2003
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tagsalgorithms amino acid sequence amino acids binding sites capsid proteins cell line chemical models computational biology computer simulation conserved sequence cysteine database management systems dna methylation dna primers drug stability energy transfer genome genomics humans hydrophobic and hydrophilic interactions kringles lipid bilayers markov chains membrane proteins molecular models molecular sequence data neural networks (computer) oxidation-reduction pliability polymerase chain reaction protein binding protein conformation protein databases protein engineering protein folding protein sequence analysis proteins reproducibility of results secondary protein structure sequence alignment statistical models structure-activity relationship sulfites temperature tertiary protein structure thermodynamics tissue plasminogen activator

MLSTTool Content

http://www.mlst.net/ [open in a new window]

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DNA > Phylogeny Reconstruction
Model Organisms > Microbes
Sequence Comparison > Comparative Genomics

MLST (Multi Locus Sequence Typing) is a nucleotide sequence based approach for the unambiguous characterisation of isolates of bacteria and other organisms using the sequences of internal fragments of seven house-keeping genes.

links directory index: 2035
TitlePublication YearGoogle Scholar Citation Count
The multilocus sequence typing network: mlst.net200589
Molecular typing of bacteria directly from cerebrospinal fluid200043
Multilocus sequence typing: molecular typing of bacterial pathogens in an era of rapid DNA sequencing and the internet1999136
Multilocus sequence typing: a portable approach to the identification of clones within populations of pathogenic microorganisms19981767
NAR Web Server Issue 2005
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tagsalleles bacteria bacterial dna bacterial genes bacterial meningitis bacterial typing techniques cerebrospinal fluid cluster analysis dna sequence analysis evaluation studies as topic gene frequency humans meningococcal infections molecular sequence data mycological typing techniques neisseria meningitidis nucleic acid databases pneumococcal meningitis polymerase chain reaction serotyping streptococcus pneumoniae virulence

MobilomeFINDERTool Content

http://mml.sjtu.edu.cn/MobilomeFINDER/ [open in a new window]

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Model Organisms > Microbes
Sequence Comparison > Comparative Genomics

MobilomeFINDER (Mobile Genome FINDER) is a tool for high-throughput genomic island discovery.

links directory index: 83
TitlePublication YearGoogle Scholar Citation Count
MobilomeFINDER: web-based tools for in silico and experimental discovery of bacterial genomic islands200728
A novel strategy for the identification of genomic islands by comparative analysis of the contents and contexts of tRNA sites in closely related bacteria200645
ArrayOme: a program for estimating the sizes of microarray-visualized bacterial genomes200510
NAR Web Server Issue 2007
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tagsalgorithms bacterial genes bacterial genome bacterial rna computational biology enterobacteriaceae escherichia coli escherichia coli k12 fungal gene expression regulation genomic islands genomics oligonucleotide array sequence analysis polymerase chain reaction pseudomonas aeruginosa shigella shigella flexneri streptococcus suis theoretical models transfer rna

MutScreenerTool Content

http://bioinfo.bsd.uchicago.edu/MutScreener.html [open in a new window]

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DNA > Tools For the Bench

MutScreener is a human-specific primer design tool that considers gene annotation information to design primers for mutation screening. Users can provide custom gene annotation or use existing public gene annotations.

links directory index: 7
TitlePublication YearGoogle Scholar Citation Count
MutScreener: primer design tool for PCR-direct sequencing20067
NAR Web Server Issue 2006
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tagsdna primers exons genetic promoter regions genomics human genome humans polymerase chain reaction

NTMGTool Content

http://oblab.cs.nchu.edu.tw:8080/WebSDL/ [open in a new window]

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DNA > Tools For the Bench

NTMG (N-Terminal Truncated Mutants Generator) is a tool for generating multiplex PCR primers for designing N-terminal truncated mutants.

links directory index: 1
TitlePublication YearGoogle Scholar Citation Count
NTMG (N-terminal Truncated Mutants Generator for cDNA): an automatic multiplex PCR assays design for generating various N-terminal truncated cDNA mutants20071
NAR Web Server Issue 2007
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tagsalgorithms automation complementary dna dna primers dna sequence analysis gene deletion humans mutagenesis mutation polymerase chain reaction single nucleotide polymorphism

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