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  • gene
  • While several web services for the gene-by-gene design of sgRNAs have been developed [ 18 - 22 ], integrated and flexible bioinformatics workflows for the design of custom sgRNA libraries are currently lacking. (biomedcentral.com)
  • These Hpa I fragments were inserted into the ampicillin resistance gene of the plasmid pBR322. (ubc.ca)
  • One single gene cluster, kaiABC, was found to be rhythmic in nature when the fragment of the plasmid responsible for rescue was sequenced. (wikipedia.org)
  • In this example, a gene from mammalian gene library will be subcloned into a bacterial plasmid (destination platform). (wikipedia.org)
  • Both the PCR product containing the mammalian gene with the new restriction sites and the destination plasmid are subjected to restriction digestion, and the digest products are purified by gel electrophoresis. (wikipedia.org)
  • It consists of subjecting a gene to iterative rounds of mutagenesis (creating a library of variants), selection (expressing the variants and isolating members with the desired function), and amplification (generating a template for the next round). (wikipedia.org)
  • ligation
  • The digest products, now containing compatible sticky ends with each other (but incompatible sticky ends with themselves) are subjected to ligation, creating a new plasmid which contains the background elements of the original plasmid with a different insert. (wikipedia.org)
  • fragment
  • The probability of covering a given location on the target with at least one fragment is therefore P = 1 − [ 1 − L G ] N . {\displaystyle P=1-\left[1-{\frac {L}{G}}\right]^{N}.} This equation was first used to characterize plasmid libraries, but it may appear in a modified form. (wikipedia.org)
  • This allows researchers to also determine the percentage of infectious viral particles actually carrying a fragment of the library. (wikipedia.org)
  • collections
  • The UNT Libraries serve the university and community by providing access to physical and online collections, fostering information literacy, supporting academic research, and much, much more. (unt.edu)
  • Parts libraries: Collections of parts are organized in libraries. (wikipedia.org)
  • fragments
  • Accurate cloning of isolated fragments containing short tandem repeats, AT-rich DNA, or regions with strong secondary structure likewise can be difficult or impossible using conventional supercoiled plasmids. (aacrjournals.org)
  • In order to construct a genomic library, the organism's DNA is extracted from cells and then digested with a restriction enzyme to cut the DNA into fragments of a specific size. (wikipedia.org)
  • The advantage of cloning based construction of the library is that it maintains the fragments or cDNA intact for future use. (wikipedia.org)
  • During the construction of the PET library, the fragments can be selected to all be of a certain size. (wikipedia.org)
  • synthetic
  • Here we demonstrate the applicability and versatility of standard synthetic biological parts biobricks to build custom plasmids. (duhnnae.com)
  • generate
  • Furthermore, in vitro evolution experiments can generate far larger libraries (up to 1015) because the library DNA need not be inserted into cells (often a limiting step). (wikipedia.org)
  • variations
  • Researchers often require customised variations of plasmids that are not commercially available. (duhnnae.com)
  • Variations on library construction have been produced by next-generation sequencing companies to suit their respective technologies. (wikipedia.org)
  • reporter
  • For example, in 3 biobrick iterations, we make a cerulean-reporter plasmid for cloning fluorescent protein fusions. (duhnnae.com)
  • insert
  • for more information see DNA ligase), the insert should become successfully incorporated into the destination plasmid. (wikipedia.org)
  • maintains
  • Serving as both a federal and a state depository library, the UNT Libraries Government Documents Department maintains millions of items in a variety of formats. (unt.edu)
  • successfully
  • Calculating the titer allows researchers to approximate how many infectious viral particles were successfully created in the library. (wikipedia.org)
  • biological
  • In April, 2015, Peccoud and colleagues published a library of biological parts, called GenoLIB, that can be incorporated into the GenoCAD platform. (wikipedia.org)
  • The Reference Library System - sharing biological material and experimental data. (wikipedia.org)
  • often
  • For instance, cancer origin of a library is often mixed with the tissue name (e.g., the tissue name "glioblastoma" indicates that the EST library was sequenced from brain tissue and the disease condition is cancer). (wikipedia.org)
  • Available
  • There are a number of other analysis scripts available, some associated with specific libraries, but any analysis script should return the same output: a spreadsheet of read counts. (addgene.org)
  • collection
  • In 1990 the plasmid collection of the Laboratory of Molecular Biology of Ghent University was added to the consortium (BCCM/GeneCorner). (wikipedia.org)
  • specific
  • User workspace: Users can personalize their workspace by adding parts to the GenoCAD database, creating specialized libraries corresponding to specific design projects, and saving designs at different stages of development. (wikipedia.org)
  • parts
  • In other cases, libraries correspond to the parts used for a particular design project. (wikipedia.org)
  • Parts can be moved from one library to another through a temporary storage area called the cart (analogous to e-commerce shopping carts). (wikipedia.org)
  • Importing/Exporting parts: Parts can be imported and exported individually or as entire libraries using standard file formats (e.g., tab delimited, FASTA, SBML). (wikipedia.org)
  • custom
  • To demonstrate its utility, we perform a pooled screen for modulators of the TNF-related apoptosis inducing ligand (TRAIL) pathway using a custom library of 12,471 sgRNAs. (biomedcentral.com)
  • We used this method to design a custom sgRNA library and performed a pooled screen to identify all known essential components of the TNF-related apoptosis-inducing ligand (TRAIL) pathway. (biomedcentral.com)
  • These parameters enable the construction of custom libraries optimized for a broad spectrum of experimental applications. (biomedcentral.com)
  • protein
  • Applications of phage display technology include determination of interaction partners of a protein (which would be used as the immobilised phage "bait" with a DNA library consisting of all coding sequences of a cell, tissue or organism) so that the function or the mechanism of the function of that protein may be determined. (wikipedia.org)
  • The technique is also used to determine tumour antigens (for use in diagnosis and therapeutic targeting) and in searching for protein-DNA interactions using specially-constructed DNA libraries with randomised segments. (wikipedia.org)
  • mutagenesis
  • It consists of subjecting a gene to iterative rounds of mutagenesis (creating a library of variants), selection (expressing the variants and isolating members with the desired function), and amplification (generating a template for the next round). (wikipedia.org)
  • gene
  • A plasmid expressing flippase (FLP) can be transformed into the recombined cells, which can specifically cleave FLP recognition target sites (FRTs) flanking the antibiotic resistance gene. (wikipedia.org)
  • The blue/white screening method relies on the principle of α-complementation of the β-galactosidase gene, where a fragment of the lacZ gene (lacZα) in the plasmid can complement another mutant lacZ gene (lacZΔM15) in the cell. (wikipedia.org)
  • large
  • PCC6803 is contained within approximately 12 copies of a single chromosome (3.57 megabases), three small plasmids: pCC5.2 (5.2 kb) pCA2.4 (2.4 kb), and pCB2.4 (2.4 kb) and four large plasmids: pSYSM (120 kb), pSYSX (106 kb), pSYSA (103kb), and pSYSG (44 kb). (wikipedia.org)
  • total
  • Kits are available for plasmid miniprep, gel extraction, PCR & reaction cleanup, and total RNA purification. (neb.com)
  • The likelihood of success in a directed evolution experiment is directly related to the total library size, as evaluating more mutants increases the chances of finding one with the desired properties. (wikipedia.org)