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Genomics02:02

Genomics

40.9K
Genomics is the science of genomes: it is the study of all the genetic material of an organism. In humans, the genome consists of information carried in 23 pairs of chromosomes in the nucleus, as well as mitochondrial DNA. In genomics, both coding and non-coding DNA is sequenced and analyzed. Genomics allows a better understanding of all living things, their evolution, and their diversity. It has a myriad of uses: for example, to build phylogenetic trees, to improve productivity and...
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Genomic Imprinting and Inheritance02:30

Genomic Imprinting and Inheritance

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Diploid organisms inherit genetic material through chromosomes from both parents. Copies of the same gene are known as alleles. In most cases, both alleles are simultaneously expressed and allow various cellular processes to function optimally. If one of the alleles is missing or mutated, the expression of the other allele can compensate; however, this is not true for all genes.
The expression of some genes depends on which parent passed the gene to the offspring, through a phenomenon known as...
37.3K
Genome Size and the Evolution of New Genes03:21

Genome Size and the Evolution of New Genes

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While every living organism has a genome of some kind (be it RNA, or DNA), there is considerable variation in the sizes of these blueprints. One major factor that impacts genome size is whether the organism is prokaryotic or eukaryotic. In prokaryotes, the genome contains little to no non-coding sequence, such that genes are tightly clustered in groups or operons sequentially along the chromosome. Conversely, the genes in eukaryotes are punctuated by long stretches of non-coding sequence.
9.2K
Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes02:16

Comparing Mitochondrial, Chloroplast, and Prokaryotic Genomes

17.1K
The present-day mitochondrial and chloroplast genomes have retained some of the characteristics of their ancestral prokaryotes and also have acquired new attributes during their evolution within eukaryotic cells. Like prokaryotic genomes, mitochondrial and chloroplast genomes neither bind with histone-like proteins nor show complex packaging into chromosome-like structures, as observed in eukaryotes. Unlike mitotic cell divisions observed in eukaryotic cells, mitochondria and chloroplasts...
17.1K
piRNA - Piwi-interacting RNAs02:57

piRNA - Piwi-interacting RNAs

7.7K
PIWI-interacting RNAs, or piRNAs, are the most abundant short non-coding RNAs. More than 20,000 genes have been found in humans that code for piRNAs while only 2000 genes have been found for miRNAs. piRNAs can act at the transcriptional and post-transcriptional levels and have a vital role in silencing transposable elements present in germ cells. They are also involved in epigenetic silencing and activation. Previously, they were thought to function only in germ cells but new evidence suggests...
7.7K
Genomic DNA in Prokaryotes00:46

Genomic DNA in Prokaryotes

48.9K
The genome of most prokaryotic organisms consists of double-stranded DNA organized into one circular chromosome in a region of cytoplasm called the nucleoid. The chromosome is tightly wound, or supercoiled, for efficient storage. Prokaryotes also contain other circular pieces of DNA called plasmids. These plasmids are smaller than the chromosome and often carry genes that confer adaptive functions, such as antibiotic resistance.
Genomic Diversity in Bacteria
Although bacterial genomes are much...
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Related Experiment Video

Updated: Feb 16, 2026

Exploring Protein-Glycan Interactions: Advances in Nuclear Magnetic Resonance
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Exploring Protein-Glycan Interactions: Advances in Nuclear Magnetic Resonance

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Interactive Exploration on Large Genomic Datasets.

Eric Tu1

  • 1Master of Science in Electrical Engineering and Computer Science, University of California, Berkeley.

EECS Technical Report Series
|January 9, 2018
PubMed
Summary
This summary is machine-generated.

Mango is a new genome browser designed to handle massive genomics datasets. It offers scalable visualization for large genomic regions and multiple samples, overcoming limitations of existing tools.

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Area of Science:

  • Genomics and Bioinformatics
  • Data Visualization
  • Distributed Computing

Background:

  • The increasing size of genomics datasets, exemplified by projects like the 1000 Genomes Project, necessitates advanced data exploration tools.
  • Current genomic visualization tools struggle to scale with large datasets, particularly for extensive genomic regions (over 1 megabase) or multi-sample comparisons.
  • Genomic data processing has adopted distributed computing, but visualization tools have lagged behind.

Purpose of the Study:

  • To introduce Mango, a novel, scalable genome browser designed to address the limitations of existing tools in visualizing large-scale genomics data.
  • To enable efficient visualization of terabytes of genomic data, including large regions and multiple samples, by leveraging distributed computing.

Main Methods:

  • Developed Mango, a genome browser built upon the ADAM distributed processing framework.
  • Integrated various optimizations within Mango to support novel visualization techniques for large genomics datasets.
  • Designed Mango to operate effectively both locally and on distributed computing clusters.

Main Results:

  • Mango provides scalable visualization capabilities for terabytes of genomic data.
  • Enables visualization queries over large genomic regions, a task not feasible with current tools.
  • Significantly reduces the time required for viewing and analyzing large genomic datasets.

Conclusions:

  • Mango offers a scalable solution for visualizing large genomics datasets, overcoming the limitations of existing tools.
  • By integrating visualization with distributed processing, Mango facilitates advanced genomic data exploration.
  • Mango represents a significant advancement for the Big Data Genomics project, published under the Apache 2 license.