chromDraw: an R package for visualization of linear and circular karyotypes

Chromosome Research : an International Journal on the Molecular, Supramolecular and Evolutionary Aspects of Chromosome Biology
Jan Janečka, Martin A Lysak

Abstract

Species-specific sets of chromosomes-karyotypes-are traditionally depicted as linear ideograms with individual chromosomes represented by vertical bars. However, linear visualization has its limitations when the shared collinearity and/or chromosomal rearrangements differentiating two or more karyotypes need to be demonstrated. In these instances, circular visualization might provide easier comprehension and interpretation of inter-species chromosomal collinearity. The chromDraw graphical tool was developed as a user-friendly graphical tool for visualizing both linear and circular karyotypes based on the same input data matrix. The output graphics, saved in two different formats (EPS and SVG), can be easily imported to and modified in presentation and image-editing computer programs. The tool is freely distributed under GNU General Public License (GPL) and can be installed from Bioconductor or from the chromDraw home page.

References

Aug 1, 1993·Computer Applications in the Biosciences : CABIOS·H DohiN Shimizu
Jan 27, 1999·Bioinformatics·S PookE Barillot
Oct 6, 2004·Genome Biology·Robert C GentlemanJianhua Zhang
Oct 13, 2006·Trends in Plant Science·M Eric SchranzThomas Mitchell-Olds
Feb 14, 2008·The Plant Journal : for Cell and Molecular Biology·Eric Lyons, Michael Freeling
Jun 23, 2009·Genome Research·Martin KrzywinskiMarco A Marra
Jul 14, 2010·Bioinformatics·Lionel GuySiv G E Andersson
Jul 20, 2010·The Plant Cell·Terezie MandákováMartin A Lysak
Sep 4, 2012·Genome Biology·Tengfei YinMichael Lawrence
Aug 21, 2013·PLoS Computational Biology·Michael LawrenceVincent J Carey
May 1, 1991·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·K Fukui, K Iijima
Apr 1, 1986·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·K Fukui
Apr 14, 2015·The Plant Journal : for Cell and Molecular Biology·Terezie MandákováMartin A Lysak

❮ Previous
Next ❯

Citations

Jul 27, 2017·Scientific Reports·Carlos D SantosJoão P Silva
Feb 6, 2019·Nature Microbiology·Mireia Valles-ColomerJeroen Raes
Dec 12, 2018·Respiratory Research·Daphnée LamarcheUNKNOWN Canadian Critical Care Translational Biology Group
Jan 20, 2020·PeerJ. Computer Science·Zhaodong HaoJinhui Chen

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.