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A Computational Screening protocol for Antifreeze/Ice-Structuring Proteins - http://www.natureprotocols.com/2006/08/17/afpredictor_a_computational_sc.php

Category: Bioinformatics

Using AFPredictor, it was demonstrated that ‘ordered surface carbons’ (OSCs) are a distinguishing feature of AFPs and, more specifically, their ice-binding surfaces. AFPredictor identified AFPs from within a large set of structures with greater than 99% specificity. Furthermore, it was used to identify a novel ice-binding protein by screening a library of homology modeled structures based on cDNA sequences obtained from cold-acclimated winter rye (Secale cereale). - [Read A Computational Screening protocol for Antifreeze/Ice-Structuring Proteins]

A Photoelectric Method for analyzing NO-induced apoptsis. - http://library.ibp.ac.cn/html/slwj/000165618800012.pdf

Category: Cell Biology and Cell Culture: Apoptosis Protocols

A Photoelectric Method for analyzing NO-induced apoptsis. Zhang et al. 2000 - [Read A Photoelectric Method for analyzing NO-induced apoptsis.]

Amplification and Storage of a Cosmid Library: Amplification in Liquid Culture Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot4001

Category: DNA Protocols: Cosmid Library Protocols

Amplification of cosmid libraries may result in distorted representation of cloned genomic sequences and should be avoided wherever possible. If amplification should become necessary, it is best to expand the library by growth in liquid medium. - [Read Amplification and Storage of a Cosmid Library: Amplification in Liquid Culture Protocol]

Amplification and Storage of a Cosmid Library: Amplification on Filters Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot4002

Category: DNA Protocols: Cosmid Library Protocols

Amplification of cosmid libraries may result in distorted representation of cloned genomic sequences and should be avoided wherever possible. In this method of amplification, distortion of the library is rarely a problem because at no stage are bacteria containing different recombinant cosmids grown in competition with one another. - [Read Amplification and Storage of a Cosmid Library: Amplification on Filters Protocol]

Bacteriophage Lamda Plant Genomic Library Construction Protocol - http://www.oardc.ohio-state.edu/stockingerlab/Protocols/GenomicDNAPhageLibraryConstruction.pdf

Category: DNA Protocols: Genomic DNA Library Protocols

Protocol for bacteriophage lamda plant genomic library construction. Includes: Preparation of the insert DNA; Pilot Sau3A Digestion; Full-scale partial digestions. - [Read Bacteriophage Lamda Plant Genomic Library Construction Protocol]

Basic Cell Culture Protocols - http://www.hyclone.com/library/basicprotocols.htm

Category: Cell Biology and Cell Culture

Basic Cell Culture Protocols. Passaging, Counting, Viability and more. Hyclone - [Read Basic Cell Culture Protocols]

Bielschowsky Technique for Senile Plaques Protocol - http://library.med.utah.edu/WebPath/HISTHTML/MANUALS/BIELSCH.PDF

Category: Neuroscience Protocols: Neuronal Stains Protocols: Stains for Senile Plaques Protocols

A silver stain to demonstrate neurofibrillary tangles, nerve fibers and senile plaques in Alzheimer's disease. The nerve fibers are sensitized with a silver solution. The sections are treated with ammoniacal silver, and then reduced to a visible metallic silver. - [Read Bielschowsky Technique for Senile Plaques Protocol]

C. elegans Gene Knockout Protocol - http://www.zoology.ubc.ca/~alorch/koprotocol.htm

Category: C. elegans Protocols: C. elegans Genetics Protocols

The procedure is to mutagenize a large population of worms with trimethylpsoralen and UV irradiation, set up 1152 subpopulations, screen DNA made from this library for deletions in specific genes by nested PCR, and then to recover single worms carrying the deletions through a sib-selection process. - [Read C. elegans Gene Knockout Protocol]

cDNA Library Construction Lecture - http://wine1.sb.fsu.edu/bch5425/lect27/lect27.htm

Category: RNA Protocols: cDNA Libraries Library

cDNA Library Construction Lecture. Dr.Blaber Lab - [Read cDNA Library Construction Lecture]

cDNA Library Screening Protocol - ZAPII - http://www.people.virginia.edu/~gwl6s/protocols/cdna.html

Category: RNA Protocols: cDNA Libraries Library

cDNA Library Screening Protocol - ZAPII Detailed Protocol. XLI-Blue MRF' and cDNA phage library screening. Dr. Laurie. University of Virginia Health Science Center - [Read cDNA Library Screening Protocol - ZAPII]

Clone Genes From a Phage Library Protocol - http://www.ucsf.edu/micro/faculty/Johnson/protocols/protocol1.html

Category: DNA Protocols: cDNA Library Protocols: cDNA Library Construction Protocols

Protocol for cloning genes from a phage library. Includes: Titer and plate out phage; Lift plaques onto filters and prepare them for screening; Make a probe; Hybridize the probe to the filters; Wash the filters and expose to film; Purify putative plaques; Excise plasmid from the desired phage. - [Read Clone Genes From a Phage Library Protocol]

Congo Red Putcher's Modification Amyloid Protocol - http://library.med.utah.edu/WebPath/HISTHTML/MANUALS/CONGORED.PDF

Category: Neuroscience Protocols: Neuronal Stains Protocols: Stains for Senile Plaques Protocols

Protocol to demonstrate amyloid deposits in tissue sections. When stained with the Congo Red Stain the amyloid, with the aide of polarizing lenses, will birefringe an apple green color. Under the microscope. - [Read Congo Red Putcher's Modification Amyloid Protocol]

Construction of a Yeast Genomic Library Protocol - http://www.bio.com/protocolstools/protocol.jhtml?id=p361

Category: DNA Protocols: Genomic DNA Library Protocols

Protocol for the construction of a Yeast genomic library. Includes: Prepare the genomic DNA; Prepare the Library Vector; Ligate the Digested Genomic DNA to the Digested Vector DNA; Prepare Library DNA from Bacteria. - [Read Construction of a Yeast Genomic Library Protocol]

Construction of cDNA Libraries Stage 5: Fractionation of cDNA by Gel Filtration through Sepharose - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot3730

Category: DNA Protocols: cDNA Library Protocols

Protocol for construction of cDNA library, stage 5: Fractionation of cDNA by Gel Filtration through Sepharose CL-4B. - [Read Construction of cDNA Libraries Stage 5: Fractionation of cDNA by Gel Filtration through Sepharose]

Construction of cDNA Libraries in Eukaryotic Expression Vectors for Construction and Screening - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot4068

Category: DNA Protocols: Genomic DNA Library Protocols

This stage summarizes how to construct a cDNA library in a mammalian vector, using commercial kits. These kits are available from several manufacturers and generally include all the required reagents. - [Read Construction of cDNA Libraries in Eukaryotic Expression Vectors for Construction and Screening]

Construction of Genomic DNA Libraries in Cosmid Vectors Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot4000

Category: DNA Protocols: Cosmid Library Protocols

Protocol describes how to construct a library of 35-45-kb fragments of genomic DNA in the double cos site cosmid vector, SuperCos-1. The steps include: Linearization and dephosphorylation of SuperCos-1 DNA; Partial digestion of high-molecular-weight DNA with MboI; Dephosphorylation of high-molecular-weight genomic DNA; Ligation of cosmid arms to genomic DNA: Packaging and plating recombinants; Isolation and analysis of recombinant cosmids: Validation of the library. - [Read Construction of Genomic DNA Libraries in Cosmid Vectors Protocol]

Construction of the Sequencing Library Protocol - http://sequence-www.stanford.edu/protocols/library.html

Category: DNA Protocols: DNA Sequencing Protocols

Protocol first describes the vector preparation and, then, describes the insert preparation. Vital to have an excellent vector in order to produce a sequencing library. Protocol employs the male-specific coliphage M13 as the sequencing vector. M13 is a filamentous phage with a single-stranded, circular genome. M13 is widely used as a vector because many versions are available commercially and because M13 has certain advantages. - [Read Construction of the Sequencing Library Protocol]

Differential cDNA Screening Procedures - http://wheat.pw.usda.gov/~lazo/methods/misc/Talbot.html

Category: RNA Protocols: cDNA Libraries Library

Differential cDNA Screening Procedures. The protocols listed refer to cDNA library construction and preliminary differential screening procedures. Nick Talbot lab - [Read Differential cDNA Screening Procedures]

Electroporation of the Library into COS-7 Cells for Exon Trapping and Amplification - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot3733

Category: DNA Protocols: Genomic DNA Library Protocols

COS-7 cells are transfected with a library of plasmids containing the genomic DNA of interest. - [Read Electroporation of the Library into COS-7 Cells for Exon Trapping and Amplification]

EXAMINING THE FUNCTION OF PROTEINS AND PROTEIN NETWORKS WITH THE YEAST TWO-HYBRID SYSTEM - http://proteome.wayne.edu/Update.html

Category: Molecular Model Organisms: Yeast Two-Hybrid Screen Protocol

Interactor Hunt Protocol. Testing whether a bait activates transcription. Screening a library for interactors. Finley Lab. 1997. - [Read EXAMINING THE FUNCTION OF PROTEINS AND PROTEIN NETWORKS WITH THE YEAST TWO-HYBRID SYSTEM]

Exon Trapping and Amplification for Construction of the Library Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot4075

Category: DNA Protocols: Genomic DNA Library Protocols

Protocol describes how to construct and amplify a genomic DNA library in a plasmid vector (pSPL3) equipped to express cloned exons in transfected mammalian cells. - [Read Exon Trapping and Amplification for Construction of the Library Protocol]

Fluorescence In Situ Hybridization (FISH) on Human Chromosomes and Interphase Nuclei Protocol - http://users.ugent.be/~fspelema/neubla/protocol/fish.htm

Category: Cytogenetics Protocols: Fluorescent In Situ Hybridization FISH Protocol

Protocol for fluorescence in situ hybridization (FISH) on human chromosomes and interphase nuclei. Includes: Plasmid probes; COSMID-, YAC- and LIBRARY PROBES; Probe detection. - [Read Fluorescence In Situ Hybridization (FISH) on Human Chromosomes and Interphase Nuclei Protocol]

Generation of a Library of Randomly Overlapping DNA Inserts Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot4081

Category: DNA Protocols: cDNA Library Protocols: cDNA Library Construction Protocols

Shotgun sequencing of a large segment of DNA involves random fragmentation of the target region into smaller segments that are subsequently cloned into a bacteriophage M13 vector. The goal is to create a library of overlapping clones that provide at least fivefold coverage over the entire length of the target fragment. - [Read Generation of a Library of Randomly Overlapping DNA Inserts Protocol]

Growth of S. cerevisiae and Preparation of DNA Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot3298

Category: Yeast Protocols: Yeast Genetics Protocols: YACs Protocols

Protocol describes methods for isolation of DNA from a strain of S. cerevisiae carrying a recombinant YAC. Because the linear YAC DNAs are sensitive to shearing forces, pipettes with wide-bore tips should be used to transfer DNAs. The method is suitable for preparing DNA that will be used for agarose gel electrophoresis, Southern blotting, subcloning, genomic library construction, PCR, or other methods that do not require intact high-molecular-weight DNA. - [Read Growth of S. cerevisiae and Preparation of DNA Protocol]

Handling and Using Insertion Libraries - http://ygac.med.yale.edu/mtn/protocol.stm

Category: Yeast Protocols

Handling and using insertion libraries. Includes: Curing strains of endogenous 2-micron; mTn-lacZ/LEU2 insertion library; mTn-3xHA/lacZ insertion library; mTn-3xHA/GFP insertion library. - [Read Handling and Using Insertion Libraries]

Articles (1-3 of 3)

Antibodies Phage Expression Protocol Using 96-well Microtiter Plates

A Phage display expression protocol for antibody expression in 96-well microtiter plates.

Immobilized Antigen Phage Antibody Selection Protocol

A protocol for the selection of Phage Antibodies using Immobilized Antigen. This method describes the selection of antibodies from bacteriophage antibody libraries that recognize a specific antigen. The phage display library of antibody-displaying phage particles is exposed to antigen attached to a solid substrate (Nunc Immuno™ tubes). The phage particles with affinity for antigen bind to the immobilized antigen and are selected from the library of phage expressing antibodies.