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Molecular Station Bioinformatics - http://www.molecularstation.com/bioinformatics/link/

Category: Bioinformatics

Molecular Station Bioinformatics - [Read Molecular Station Bioinformatics]

Real Time PCR Bioinformatics and Databases - http://www.molecularstation.com/bioinformatics/link/Real_Time_PCR/

Category: Real Time PCR

Real Time PCR Bioinformatics and Databases. Molecular Station. - [Read Real Time PCR Bioinformatics and Databases]

Search Results Protocol Links Sort by: Hits | Alphabetical

"CORE SAMPLE" PCR - A method to re-PCR unique bands from products of mixed size - http://www.mcb.uct.ac.za//corepcr.htm

Category: DNA Protocols: PCR Polymerase Chain Reaction Protocols: Standard PCR Protocol

"CORE SAMPLE" PCR - A method to re-PCR unique bands from products of mixed size - Molecular Biology Techniques Manual - Rybicki - [Read "CORE SAMPLE" PCR - A method to re-PCR unique bands from products of mixed size]

"CORE SAMPLE" PCR - A method to re-PCR unique bands from products of mixed size - http://www.mcb.uct.ac.za//corepcr.htm

Category: PCR Protocols: Standard PCR Protocol

2-D Polyacrylamide Gel Electrophoresis (Prostate Tissue) - http://cgap-mf.nih.gov/Protocols/DNARNAProteomicAnalysis/Proteomics/2DPage.html

Category: Proteomic Protocols: 2-D Gel Electrophoresis

A detailed protocol for 2-D Polyacrylamide Gel Electrophoresis using Prostate Tissue. Molecular Profiling Initiative. - [Read 2-D Polyacrylamide Gel Electrophoresis (Prostate Tissue)]

A Method for Micro-Scale Isolation and Purification of Gangliosides - http://www.glycotech.com/protocols/Proto1.html

Category: Molecular Biology Protocols: Carbohydrate Protocols

Solvent partition protocol allows the isolation of gangliosides from small samples and from samples where ganglioside concentrations are low, especially relative to the concentration of potentially contaminating proteins and other large molecular weight species. Stephan Ladisch Director, Center for Cancer and Transplant Biology, Children's National Medical Center, Washington, D.C. - [Read A Method for Micro-Scale Isolation and Purification of Gangliosides]

A Strategy for the Rapid Identification of - http://www.people.virginia.edu/~wrp/papers/mcp_wrp02b.pdf

Category: Protein Protocols: Protein Phosphorylation Protocols

A Strategy for the Rapid Identification of Phosphorylation Sites in the Phosphoproteome. MacDonald et al., Molecular & Cellular Proteomics. 2002. - [Read A Strategy for the Rapid Identification of]

Analysis of DNA Fragmentation Using Propidium Iodide (PI) Fluorescence of Individual Nuclei Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/1/pdb.prot4430

Category: Cell Biology and Cell Culture: Flow Cytometry Protocols: DNA Staining Protocols for Flow Cytometry

This protocol provides a method for analysis of DNA fragmentation using flow cytometry after propidium iodide (PI) labeling of apoptotic nuclei. Apoptotic nuclei stain less than their normal counterparts because of diffusion of low-molecular-weight fragments out of the cells and/or chromatin condensation. - [Read Analysis of DNA Fragmentation Using Propidium Iodide (PI) Fluorescence of Individual Nuclei Protocol]

Ancient DNA: Extraction, characterization, molecular cloning, and enzymatic amplification. PDF - http://www.pnas.org/cgi/reprint/86/6/1939

Category: DNA Protocols: DNA Extraction Protocols: Extracting Ancient DNA

The DNA obtained was invariably of a low average molecular size and damaged by oxidative processes, but PCR can be used to amplify and study short mitochondrial DNA sequences thatare of anthropological and evolutionary significance. SVANTE PAABO, PNAS. - [Read Ancient DNA: Extraction, characterization, molecular cloning, and enzymatic amplification. PDF]

Antibiotic solutions - http://molbiol.ru/eng/protocol/01_05.html

Category: Microbiology: Antibiotics Concentration in Media LB

Working concentrations and stock solutions for antibiotics, preparation of stock solutions for Ampicillin, Kanamycin and others. Practical Molecular Biology - [Read Antibiotic solutions]

Antibiotics. and Antibiotics Stock Calculator Tools - http://molbiol.edu.ru/eng/protocol/01_05.html

Category: Microbiology: Antibiotics Concentration in Media LB

Working concentrations and stock solutions and which antibiotics are light sensitive. Preparation of stock solutions and calculator tool to calculate concentrations for stock solutions. Practical Molecular Biology. - [Read Antibiotics. and Antibiotics Stock Calculator Tools]

Buffer calculator tool - http://molbiol.ru/eng/protocol/01_07.html

Category: Buffers Media, and Solutions

Buffer calculator tool for commonly used buffer compound solutions. Making different volumes? use this! (Practical Molecular Biology) - [Read Buffer calculator tool]

Calcium-phosphate-mediated Transfection of Cells with High-molecular-weight Genomic DNA - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot3872

Category: Transfection Protocols: Calcium Phosphate Transfection Protocols

This protocol,is based on the venerable method of Graham and van der Eb (1973). The procedure is used chiefly to generate stable lines of cells carrying chromosomally integrated copies of the transfected DNA. - [Read Calcium-phosphate-mediated Transfection of Cells with High-molecular-weight Genomic DNA]

Calculating Concentrations for PCR - http://www.mcb.uct.ac.za//pcrconcn.htm

Category: DNA Protocols: PCR Polymerase Chain Reaction Protocols: Standard PCR Protocol

Calculating Concentrations for PCR - Molecular Biology Techniques Manual - Rybicki - [Read Calculating Concentrations for PCR]

Calculating Concentrations for PCR - http://www.mcb.uct.ac.za//pcrconcn.htm

Category: PCR Protocols: Standard PCR Protocol

Calculating Concentrations for PCR - Molecular Biology Techniques Manual - Rybicki - [Read Calculating Concentrations for PCR]

Cell Staining for Sorting of Hematopoietic Stem Cells (HSC) and Myeloid Progenitors - http://www.natureprotocols.com/2006/06/29/cell_staining_for_sorting_of_h.php

Category: Cell Biology and Cell Culture: Flow Cytometry Protocols: Cell Sorting Protocols

The combination of prospective identification/isolation of bone marrow progenitors and quantitative RT-PCR is a powerful tool to understand the molecular mechanism underlying hematopoiesis. Describes the standard procedures of the murine myeloid progenitor staining for fluorescence activated cells sorting (FACS) and RNA purification methods. - [Read Cell Staining for Sorting of Hematopoietic Stem Cells (HSC) and Myeloid Progenitors]

Cell Staining for Sorting of Hematopoietic Stem Cells and Myeloid Progenitors and Isolating RNA - http://www.natureprotocols.com/2006/06/29/cell_staining_for_sorting_of_h.php

Category: Stem Cell Protocols

The combination of prospective identification/isolation of bone marrow progenitors and quantitative RT-PCR is a powerful tool to understand the molecular mechanism underlying hematopoiesis. Here, we described our standard procedures of the murine myeloid progenitor staining for fluorescence activated cells sorting (FACS) and RNA purification methods. - [Read Cell Staining for Sorting of Hematopoietic Stem Cells and Myeloid Progenitors and Isolating RNA]

Chromatin immunoprecipitation protocol to analyze histone modifications in Arabidopsis thaliana - http://vkp.leeds.ac.uk/Drive/Drive/ViewFile?include=y&component=security&action=Start&nextAction=gotoDoc&doc=494824#search=%22chromatin%20immunoprecipitation%20protocol%22

Category: Epigenetics and Methylation Protocols: ChIP Chromatin Immunoprecipitation Protocols

Chromatin immunoprecipitation protocol to analyze histone modifications in Arabidopsis thaliana. Werner Aufsatz, Matzke Lab. Gregor Mendel Institute of Molecular Plant Biology, Austria. Includes Chromatin Crosslinking, Chromatin preparation, Pre-clearing and immuno precipitation (IP), Collection,washes and elution of immune complexes, Reverse crosslinking and DNA cleanup - [Read Chromatin immunoprecipitation protocol to analyze histone modifications in Arabidopsis thaliana]

Colorimetric Assay to Identify Putative Ribofuranosylaminobenzene 5'-Phosphate Synthase Genes - http://76.162.25.80/bpo/arts/1/48/m48.pdf

Category: E Coli Protocols: E coli Genetics Protocols

Protocol for Colorimetric Assay to Identify Putative Ribofuranosylaminobenzene 5'-Phosphate Synthase Genes. The production of active RFAP synthase from Methanothermobacter thermautotrophicus was achieved by coexpression of the gene MTH0830 with a molecular chaperone. This is the first direct biochemical identification of a methanogen gene that codes for an active RFAP synthase. - [Read Colorimetric Assay to Identify Putative Ribofuranosylaminobenzene 5'-Phosphate Synthase Genes]

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]

Cross-linking and Immunoprecipitation Protocol - http://www.molecularstation.com/protein/protein-protocols/immunoprecipitation-protocols/

Category: Protein Protocols: Immunoprecipitation Protocols

Cross-linking and Immunoprecipitation Protocol. Molecular Station. - [Read Cross-linking and Immunoprecipitation Protocol]

DNA Cloning - http://www.molecularstation.com/dna-cloning/

Category: Molecular Biology Protocols: DNA Ligation Protocols

DNA Cloning. Cloning Calculator for ratio insert to vector / plasmid. Molecular Station. - [Read DNA Cloning]

DNA Cloning Tips Molecular Station - http://www.molecularstation.com/word_blog/dna-cloning-tips.html

Category: DNA Protocols: DNA Cloning

DNA Cloning Tips Molecular Station. Suggestions for cloning. - [Read DNA Cloning Tips Molecular Station]

DNA digestion protocol & hints PDF - http://www.crypto.wustl.edu/Protocols%20PDFs/RE%20digests%20(HL).pdf

Category: Molecular Biology Protocols: Restriction Enzyme Digestion

DNA digestion protocol & hints. Procedure and tips for restriction digestion. Doering laboratory, Department Molecular Microbiology, Washington University Medical School. - [Read DNA digestion protocol & hints PDF]

DNA Electroelution - http://rothlab.ucdavis.edu/protocols/dna-electroelution.html

Category: DNA Protocols: DNA Extraction Protocols: DNA Extraction Polyacrylamide Gels

DNA Electroelution. This protocol describes the purification of DNA by trapping in a high-salt cushion in a "UEA AnalyticalElectroeluter" (IBI). This machine is no longer manufactured, to our knowledge. However, a smiliar device can be easily made from Plexiglas according to the following diagram, taken from Cornel Mulhardt, Molecular Biology and Genomics (2007) Academic Press, p.52: Schimenti Lab - [Read DNA Electroelution]

DNA Transfection Using Polybrene Protocol - http://www.cshprotocols.org/cgi/content/extract/2006/2/pdb.prot3875

Category: Transfection Protocols

Polybrene and DMSO can be used to achieve stable transformation of several types of cells by plasmid DNA. The yield of transformants is up to 15-fold greater with Polybrene than with calcium phosphate-DNA coprecipitation. However, there is no difference between the two methods in the efficiency of transformation of cells by high-molecular-weight DNA. - [Read DNA Transfection Using Polybrene Protocol]

Enrichment for Microsatellite Sequences in Onion (Allium cepa L.) Protocol - http://barley.ipk-gatersleben.de/~dirkf/netscape.html

Category: Plant Biology Protocols: Plant Genetics Protocols

Microsatellite markers, also referred to as STMS (SequenceTagged Microsatellite Sites) or STR (Short Tandem Repeats) are widely used as molecular markers for intraspecific genotyping, molecular mapping and breeding purposes. The method described is an efficient,fast and relatively inexpensive way to obtain microsatellite markers without post-cloning selection methods. So far, the method has been successful in onion (Allium cepa L.), a plant with a large genome and for pathogenic fungi. - [Read Enrichment for Microsatellite Sequences in Onion (Allium cepa L.) Protocol]

Articles (1-3 of 3)

Paraffin Embedding Protocol

Paraffin Embedding Protocol for molecular profiling. This Paraffin Embedding Protocol describes the processing of the tissues into sections following ethanol fixation. Molecular profiling (MP) is a technique that is used to visualize the global patterns of RNA expression or protein expression in various cell types and disease processes.

Coupling Cysteine Containing Peptides to Carrier Protein for Immunization and Polyclonal Antibody

This protocol is used in the production of polyclonal antibodies that recognize a peptide sequence of interest.

DNA Ligation Protocol

The DNA Ligation protocol described here contains the steps required to join together using ligase enzyme both plasmid DNA and insert DNA fragments in order to create a new plasmid. This new ligated plasmid can be transformed after into competent bacteria to produce DNA for mini, midi or maxi-prep isolation.

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