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Google Scholar / Citation Searches Made easy PCR 1) Add the following to a microfuge tube: 10 ul reaction buffer 1 ul 15 uM forward primer 1 ul 15 uM reverse primer 1 ul template DNA 5 ul 2 mM dNTP 8 ul 25 mM MgCl2 or MgSO4 (volume variable) water (to make up to 100 ul) 2) Place tube in a thermocycler. 3) Start the PCR cycles according the following schemes: a) denaturation - 94 ° C, 30-90 sec. b) annealing - 55 °C (or -5° Tm), 0.5-2 min. c) extension - 72 °C, 1 min. repeat cycles 29 times 4) Add a final extension step of 5 min. to fill in any uncompleted polymerisation. Note: Most of the parameters can be varied to optimise the PCR (more at Tavi's PCR guide ): a) Mg ++ - one of the main variables - change the amount added if the PCR result is poor. b) Template DNA concentration - PCR is very powerful tool for DNA amplification therefore very little DNA is needed. c) Enzymes used - Taq DNA polymerase has a higher error rate (no proof-reading 3' to 5' exonuclease activity) than Tli or Pfu . h) Additives - i) PCR buffer 16.6 mM ammonium sulfate

Seq Anal Each gene has a specific sequence of nucleotides, commonly called its DNA sequence. Once we have cloned a gene into a plasmid we can determine the sequence of the DNA using the dideoxynucleotide method either manually or by using automated sequencers. To seqeunce DNA, the DNA is first denatured, producing a single stranded template. A specific primer is then added which binds to the template. Free nucleotides (dATP, dCTP, dGTP and dTTP), dATP labeled with a fluorescent dye or a radioactive element, and DNA polymerase are added, and DNA synthesis is begun. After a few minutes the sample is split into four new tubes, and dideoxynucleotides (ddATP, ddCTP, ddGTP and ddTTP) are added. One then subjects the gel to autoradiography (manual technique) or looks for fluorescent dyes (automated technique) to determine the location of each band. Click on either sequencing gel to the right to learn more about the steps involved in DNA sequencing.

SCOP: Structural Classification of Proteins Authors. Alexey G. Murzin, John-Marc Chandonia, Antonina Andreeva, Dave Howorth, Loredana Lo Conte, Bartlett G. Ailey, Steven E. Brenner, Tim J. P. The prototype of a new Structural Classification of Proteins 2 (SCOP2) database is now available at Access methods Enter SCOP at the top of the hierarchy Keyword search of SCOP entries SCOP parseable files (MRC site) All SCOP releases and reclassified entry history (MRC site) pre-SCOP - preview of the next release SCOP domain sequences and pdb-style coordinate files (ASTRAL) Hidden Markov Model library for SCOP superfamilies (SUPERFAMILY) Structural alignments for proteins with non-trivial relationships (SISYPHUS) Online resources of potential interest to SCOP users SCOPmirrors around the world may speed your access. News SCOP has been updated to include many PDB entries released before 23 February 2009. Synopsis A more detailed description of the database is available.

Primer3 Copyright Notice and Disclaimer Copyright (c) 1996,1997,1998,1999,2000,2001,2004,2006,2007 Whitehead Institute for Biomedical Research, Steve Rozen, Maido Remm, Triinu Koressaar and Helen Skaletsky All rights reserved. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: * Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. * Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. * Neither the names of the copyright holders nor contributors may be used to endorse or promote products derived from this software without specific prior written permission. Citing Primer3 We request that use of this software be cited in publications as Source code available at primer3.sourceforge.net/.

IJTMB: International Journal of Therapeutic Massage & Bodywork (Peer-reviewed) The International Journal of Therapeutic Massage & Bodywork (IJTMB) is an open access, peer-reviewed publication intended to accommodate the diverse needs of the rapidly-expanding therapeutic massage and bodywork community. Principal sections of the journal span the areas of research, education, and clinical practice. IJTMB is indexed in PubMed Central, Quertle, the Directory of Open Access Journals, CrossRef, Healthindex, Index Copernicus, Google Scholar, Hinari and Scopus. Announcements Vol 7, No 1 (2014) Table of Contents Editorial Research

Tutorial - BLAST - Workbench "The Basic Local Alignment Search Tool (BLAST) finds regions of local similarity between sequences. The program compares nucleotide or protein sequences to sequence databases and calculates the statistical significance of matches. BLAST can be used to infer functional and evolutionary relationships between sequences as well as help identify members of gene families" (quoted from the NCBI BLAST homepage). geWorkbench submits BLAST jobs to the NCBI server. Please note that although, in geWorkbench, we have adopted the default settings for each BLAST algorithm as seen on the NCBI website, those settings are subject to change at any time by NCBI. The BLAST analysis is available when a protein or DNA sequence is loaded and selected in the Workspace. Figure legend: BLAST Main Parameters. geWorkbench serves as a interface to the NCBI BLAST server and implements the same options as the NCBI BLAST website. Older help pages... Prerequisites Query sequences Invoking BLAST Parameters - Main Algorithms

ModBase Comparative Protein Structure Models Model Details Example Database ID: Q12321 This page makes all models and model details for one sequence available. The current model is shown prominently. Overview Example Dengue Virus Models for several sequences are displayed on the Sequence Overview page. A coverage sketch illustrates sequence section(s) covered by a model The sketch also links to the Model Details page. Users of ModBase are requested to cite this article in their publications: MODBASE, a database of annotated comparative protein structure models and associated resources.Ursula Pieper, Ben M. qPCR Video Search Engine - Blinkx Elementary Concepts in Statistics In this introduction, we will briefly discuss those elementary statistical concepts that provide the necessary foundations for more specialized expertise in any area of statistical data analysis. The selected topics illustrate the basic assumptions of most statistical methods and/or have been demonstrated in research to be necessary components of our general understanding of the "quantitative nature" of reality (Nisbett, et al., 1987). We will focus mostly on the functional aspects of the concepts discussed and the presentation will be very short. What are Variables? Variables are things that we measure, control, or manipulate in research. Correlational vs. Most empirical research belongs clearly to one of these two general categories. Dependent vs. Independent variables are those that are manipulated whereas dependent variables are only measured or registered. Measurement Scales Nominal variables allow for only qualitative classification. Relations between Variables .005 or p

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