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Related Concept Videos

Cis-regulatory Sequences02:02

Cis-regulatory Sequences

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Cis-regulatory sequences are short fragments of non-coding DNA that are present on the same chromosomes as the genes that they regulate. These fragments serve as binding sites for transcriptional regulators, proteins that are responsible for controlling gene transcription and differential gene expression across cell types in eukaryotes. Cis-regulatory sequences can be close to the gene of interest or thousands of bases away in the DNA sequence; however, those sequences that are further away are...
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From DNA to Protein03:06

From DNA to Protein

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The flow of genetic information in cells from DNA to mRNA to protein is described by the central dogma, which states that genes specify the sequence of mRNAs, which in turn specify the sequence of amino acids making up all proteins. The decoding of one molecule to another is performed by specific proteins and RNAs. Because the information stored in DNA is so central to cellular function, it makes intuitive sense that the cell would make mRNA copies of this information for protein synthesis...
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Recombinant DNA01:09

Recombinant DNA

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Overview
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DNA Replication02:40

DNA Replication

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DNA replication involves the separation of the two strands of the double helix, with each strand serving as a template from which the new complementary strand is copied.  After replication, each double-stranded DNA includes one parental or “old” strand and one “new” strand. This is known as semiconservative replication. The resulting DNA molecules have the same sequence and are divided equally into the two daughter cells.
Replication in Prokaryotes
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DNA-only Transposons02:57

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DNA-only transposons are called autonomous transposons since they code for the enzyme transposase that is required for the transposition mechanism. Insertion of transposons can alter gene functions in multiple ways. They can mutate the gene, alter gene expression by introducing a novel promoter or insulator sequence, introduce new splice sites, and change the mRNA transcripts produced, or remodel chromatin structure.
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Translesion DNA Polymerases02:10

Translesion DNA Polymerases

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Translesion (TLS) polymerases rescue stalled DNA polymerases at sites of damaged bases by replacing the replicative polymerase and installing a nucleotide across the damaged site. Doing so, TLS allows additional time for the cell to repair the damage before resuming regular DNA replication.
TLS polymerases are found in all three domains of life - archaea, bacteria, and eukaryotes. Of the different classes of TLS polymerases, members of the Y family are fitted with specialized structures that...
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DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling
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DNA Sequence Recognition by DNA Primase Using High-Throughput Primase Profiling

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DNAvisualization.org: a serverless web tool for DNA sequence visualization.

Benjamin D Lee1,2,3, Michael A Timony2,4, Pablo Ruiz3

  • 1In-Q-Tel Lab41, 800 El Camino Real, Suite 300, Menlo Park, CA 94025, USA.

Nucleic Acids Research
|June 7, 2019
PubMed
Summary
This summary is machine-generated.

DNA visualization tools transform complex genetic sequences into understandable images. DNAvisualization.org offers a cost-effective, serverless platform for rapid, high-throughput DNA sequence analysis and visualization.

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Area of Science:

  • Bioinformatics
  • Computational Biology
  • Genomics

Background:

  • Raw DNA sequences contain vast biological information but are difficult for humans to interpret directly.
  • Existing methods for DNA sequence visualization are often limited in performance or cost-effectiveness.

Purpose of the Study:

  • To present DNAvisualization.org, a novel platform for transforming DNA sequences into intuitive two-dimensional visualizations.
  • To enable efficient and accessible DNA sequence analysis through a serverless architecture.

Main Methods:

  • Implementation of multiple DNA sequence visualization methods on a serverless architecture.
  • Utilization of serverless parallel computing and selective data retrieval for performance.
  • Development of a website (DNAvisualization.org) for user-friendly access.

Main Results:

  • Simultaneous visualization of up to thirty large DNA sequences (4.5 Mb each).
  • Support for five distinct DNA visualization methods.
  • Export of visualizations in publication-ready formats.

Conclusions:

  • DNAvisualization.org provides a scalable and performant solution for DNA sequence visualization.
  • The platform enhances the interpretability of complex genomic data for researchers.
  • Serverless architecture enables cost-effective and high-throughput biological data analysis.