> Tag > Links tagged with 'molecular cloning'

Links tagged with 'molecular cloning'

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Found 8 links

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ACIDDatabase Content

http://bioinfo.thep.lu.se/acid.html [open in a new window]

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Expression > Transcript Expression Analysis
Expression > cDNA, EST, SAGE

The Array Clone Information Database (ACID) is a searchable resource for information about human, mouse, and rat cDNA clones. Each clone contains information about the assigned UniGene cluster(s), location in the full-length transcript, assigned gene ontology terms and position in the genome assembly.

links directory index: 18
TitlePublication YearGoogle Scholar Citation Count
ACID: a database for microarray clone information200418
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tagsanimals chromosome mapping database management systems genetic databases human genome humans mice molecular cloning oligonucleotide array sequence analysis

iCE - internet Contig ExplorerTool Content

http://www.bcgsc.ca/platform/bioinfo/software/ice [open in a new window]

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DNA > Mapping and Assembly
Model Organisms > General Resources

Viewer for physical map data (for mouse, rat, cow, Cryptococcus); developed at the Genome Sciences Centre, Vancouver.

links directory index: 21
TitlePublication YearGoogle Scholar Citation Count
Internet Contig Explorer (iCE)--a tool for visualizing clone fingerprint maps200321
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tagsanimals arabidopsis caenorhabditis caenorhabditis elegans contig mapping dna fingerprinting helminth dna humans mice molecular cloning oryza sativa plant dna rats

PHUSERTool Content

http://www.cbs.dtu.dk/services/phuser/ [open in a new window]

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DNA > Tools For the Bench

Primer Help for Uracil Specific Exision Reagent (PHUSER) is a tool for designing primers specifically for USER fusion and USER cloning applications. Standard primer analyses are also conducted.

links directory index: 2
TitlePublication YearGoogle Scholar Citation Count
PHUSER (Primer Help for USER): a novel tool for USER fusion primer design20112
NAR Web Server Issue 2011
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tagsdna dna primers molecular cloning polymerase chain reaction uracil

SAGE Home PageTool Content

http://www.sagenet.org/ [open in a new window]

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Expression > cDNA, EST, SAGE

Serial Analysis of Gene Expression; simultaneous expression and map information.

links directory index: 4128
TitlePublication YearGoogle Scholar Citation Count
Serial analysis of gene expression19954128
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tagsbase sequence complementary dna dna restriction enzymes gene expression gene library genetic techniques humans messenger rna molecular cloning molecular sequence data pancreas polymerase chain reaction

STING MilleniumTool Content

http://luna.bioc.columbia.edu/SMS/STINGm/ [open in a new window]

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Protein > 3-D Structural Features
Protein > 3-D Structure Comparison
Protein > Annotation and Function
Protein > Biochemical Features
Protein > Phylogeny Reconstruction
Protein > Sequence Comparison

STING is a suite of tools for the analysis of protein sequence, structure, stability and function - and the relationships between them.

links directory index: 168
TitlePublication YearGoogle Scholar Citation Count
The Diamond STING server200522
STING Report: convenient web-based application for graphic and tabular presentations of protein sequence, structure and function descriptors from the STING database200516
STING Contacts: a web-based application for identification and analysis of amino acid contacts within protein structure and across protein interfaces200415
Defining 3D residue environment in protein structures using SCORPION and FORMIGA20043
ConSSeq: a web-based application for analysis of amino acid conservation based on HSSP database and within context of structure200415
STING Millennium Suite: integrated software for extensive analyses of 3d structures of proteins and their complexes200422
JavaProtein Dossier: a novel web-based data visualization tool for comprehensive analysis of protein structure200422
STING Millennium: A web-based suite of programs for comprehensive and simultaneous analysis of protein structure and sequence200344
Analysis of structural and physico-chemical parameters involved in the specificity of binding between alpha-amylases and their inhibitors20009
NAR Web Server Issue 2003NAR Web Server Issue 2005
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tagsacid anhydride hydrolases algorithms alpha-amylases amino acid sequence amino acid sequence homology amino acids animals beetles binding sites chemical models chymotrypsin color computational biology computer simulation conserved sequence enzyme inhibitors fabaceae hiv integrase hydrogen bonding lectins medicinal plants molecular cloning molecular models molecular sequence data molecular structure online systems ovomucin plant lectins plant proteins proprotein convertases protein binding protein conformation protein databases protein interaction mapping protein sequence analysis protein structural homology proteins quaternary protein structure recombinant proteins sequence alignment structure-activity relationship systems integration x-ray crystallography

TRODTool Content

http://www.cellbio.unige.ch/RNAi.html [open in a new window]

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DNA > Tools For the Bench
Expression > Gene Regulation
RNA > Structure Prediction, Visualization, and Design

T7 RNAi Oligo Designer (TROD) aids in the design of DNA oligonucleotides for short interfering RNA (siRNA) synthesis with T7 RNA polymerase. It takes an input of a cDNA sequence and outputs a list of DNA oligos for ordering.

links directory index: 326
TitlePublication YearGoogle Scholar Citation Count
TROD: T7 RNAi Oligo Designer200416
RNA interference in mammalian cells using siRNAs synthesized with T7 RNA polymerase2002310
NAR Web Server Issue 2004
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tagscell line dna-directed rna polymerases double-stranded rna gene silencing green fluorescent proteins hela cells humans luminescent proteins messenger rna molecular cloning molecular sequence data oligodeoxyribonucleotides plasmids recombinant fusion proteins rna interference small interfering rna transfection viral proteins

ViralORFeomeDatabase Content

http://www.viralorfeome.com/ [open in a new window]

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Model Organisms > Databases

ViralORFeome 1.0 is a database and management system that provides an integrated set of bioinformatic tools to clone viral ORFs in the Gateway(R) system. ViralORFeome provides a convenient interface to navigate through virus genome sequences, to design ORF-specific cloning primers, to validate the sequence of generated constructs and to browse established collections of virus ORFs. ViralORFeome has been designed to manage all possible variants or mutants of a given ORF so that the cloning procedure can be applied to any emerging virus strain. A subset of plasmid constructs generated with ViralORFeome platform has been tested with success for heterologous protein expression in different expression systems at proteome scale.

links directory index: 14
TitlePublication YearGoogle Scholar Citation Count
ViralORFeome: an integrated database to generate a versatile collection of viral ORFs201014
NAR Database Issue 2010
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tagscomputational biology genetic databases genetic techniques molecular cloning nucleic acid databases open reading frames protein databases tertiary protein structure viral genes viral genome

Zinc Finger ToolsTool Content

http://www.scripps.edu/mb/barbas/zfdesign/zfdesignhome.php [open in a new window]

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DNA > Structure and Sequence Feature Detection
Expression > Gene Regulation

Zinc Finger Tools provides several tools for selecting zinc finger protein target sites and for designing the proteins that will target them.

links directory index: 984
TitlePublication YearGoogle Scholar Citation Count
Zinc Finger Tools: custom DNA-binding domains for transcription factors and nucleases2006135
Development of zinc finger domains for recognition of the 5'-CNN-3' family DNA sequences and their use in the construction of artificial transcription factors2005117
Scanning the human genome with combinatorial transcription factor libraries200394
Development of zinc finger domains for recognition of the 5'-ANN-3' family of DNA sequences and their use in the construction of artificial transcription factors2001218
Insights into the molecular recognition of the 5'-GNN-3' family of DNA sequences by zinc finger domains2000113
Toward controlling gene expression at will: selection and design of zinc finger domains recognizing each of the 5'-GNN-3' DNA target sequences1999307
NAR Web Server Issue 2006
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tagsamino acid sequence animals base sequence binding sites biomolecular nuclear magnetic resonance cell line combinatorial chemistry techniques computer simulation deoxyribonuclease i deoxyribonucleases dna dna primers dna sequence analysis dna-binding proteins down-regulation drug design enzyme-linked immunosorbent assay epidermal growth factor receptor erbb genes erbb-1 genes erbb-2 genes erbb-2 receptor erbb-3 receptor flow cytometry gene expression profiling gene expression regulation gene library gene targeting genetic promoter regions genetic transcription green fluorescent proteins histidine human genome humans kidney luminescent proteins lysine mice molecular cloning molecular models molecular sequence data mutation nucleic acid conformation oligonucleotides peptide library pliability polymerase chain reaction protein conformation protein engineering proteomics recombinant proteins reporter genes retroviridae secondary protein structure sequence analysis site-directed mutagenesis substrate specificity tertiary protein structure transcription factors transfection up-regulation x-ray crystallography zinc fingers

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