- Nov 2017
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www.nature.com www.nature.com
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Two independent modes of chromatin organization revealed by cohesin removal
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- Oct 2017
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www.biostars.org www.biostars.org
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What Tools/Libraries Do You Use To Visualize Genomic Feature Data?
discussion of tools; recently revived
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asciigenome.readthedocs.io asciigenome.readthedocs.io
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ASCIIGenome is a command-line genome browser running from terminal window
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www.sanger.ac.uk www.sanger.ac.uk
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Artemis is a free genome browser and annotation tool that allows visualisation of sequence features, next generation data and the results of analyses within the context of the sequence, and also its six-frame translation
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github.com github.com
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Genome Maps is a modern and high-performance web-based HTML5 genome browser
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- Sep 2017
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www.biorxiv.org www.biorxiv.org
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Major flaws in "Identification of individuals by trait prediction using whole-genome sequencing data"
re Venter study in PNAS, claiming to be able to identify people based on whole genome data
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www.nature.com www.nature.com
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Plot a course through the genome Inspired by Google Maps, a suite of tools is allowing researchers to chart the complex conformations of chromosomes.
mentioned tools are focused on (capture) Hi-C data
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- Jul 2017
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www.napoleome.ch www.napoleome.ch
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Napoleon oak genome sequencing project web site: example of public engagement in tree genomics
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www.ncbi.nlm.nih.gov www.ncbi.nlm.nih.gov
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Quercus robur Genome sequencing and assembly
data (not yet live) associated with https://hyp.is/4DerrmIaEeehDPNBqsRcxQ/www.biorxiv.org/content/biorxiv/early/2017/06/13/149203.full.pdf
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- Jun 2017
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molossinus.lab.nig.ac.jp molossinus.lab.nig.ac.jp
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Takada et al. 2013
NIG Mouse Genome Database: JF1 and MSM SNPs; effective genome browser
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- Sep 2016
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software.broadinstitute.org software.broadinstitute.org
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You must quit IGV and restart for this preference to take effect. The genome should appear in the drop-down list.
restart may be insufficient; had to modify prefs.properties in ~/igv (removing old cached genome values) before i could see my genomes
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- Apr 2016
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gigadb.org gigadb.org
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IsPreviousVersionOf doi:10.5524/100148
This paper was studied in a case study that lead to some corrections. See the paper here: http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0127612
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gigadb.org gigadb.org
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genomically poorly explored
Poorly studied in some part to its very high degree of heterozygosity. You can get some more insight here, where it was nominated as a "top ten genome" http://www.homolog.us/blogs/blog/2015/05/08/top-ten-genomes-ix-pacific-oyster/
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gigadb.org gigadb.org
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Long Fragment Read technology
See Nature doi:10.1038/nature11236 for more on how LFR works: http://www.nature.com/nature/journal/v487/n7406/full/nature11236.html
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