linkstream2 microblog

[Protein] Glypican-1 [uniquely] identifies [circulating] cancer #exosomes & detects…cancer
http://www.nature.com/nature/journal/v523/n7559/full/nature14581.html Maybe also for @exRNA

QT:{{”
Exosomes are lipid-bilayer-enclosed extracellular vesicles that contain proteins and nucleic acids. They are secreted by all cells and circulate in the blood. Specific detection and isolation of
…we identify a cell surface
proteoglycan, glypican-1 (GPC1), specifically enriched on
cancer-cell-derived exosomes. GPC1+ circulating exosomes (crExos) were monitored …”}}

http://www.nature.com/nature/journal/v523/n7559/full/nature14581.html

Invest in Exosomes Before Wall Street
http://www.cheatsheet.com/life/health/invest-in-exosomes-before-wall-street-does.html They’re “akin to the Twitter of cells because of” their intercellular messages

QT:{{”
James McCullough, chief executive at privately held Exosome
Diagnostics, appropriately has dubbed exosomes as “the body’s Federal Express system.” Perhaps more succinctly, Dr. Douglas Taylor of Exosome Sciences, a subsidiary of Aethlon Medical (OTCBB:AEMD), has said that exosomes are akin to the “Twitter of cells” because of the messages they deliver from cell to cell.
“}}

Crowd-sourcing w AMZN mechanical turk

http://www.crowdflower.com/

also odesk
http://www.behind-the-enemy-lines.com/2012/02/mturk-vs-odesk-my-experiences.html

i0biods14 => #biodata14
i0pcawg14 => i0pcawg14+exrna

https://storify.com/markgerstein/favorite-tweets-from-biological-data-science-i0bio

http://linkstream2.gerstein.info/tag/i0pcawg14
http://linkstream2.gerstein.info/tag/i0biods14

http://lectures.gersteinlab.org/summary/nc-annotation-sect-from–PAWG-2-5-9-14_prep_for_Boston_mtg

http://lectures.gersteinlab.org/summary/Framework-to-prioritize-Regulatory-variants-Progressive-summarization-of-large-scale-data–20141108-i0biods14/

The go-between: Life’s unexpected
messengerhttp://www.newscientist.com/article/mg22329860.400-the-gobetween-lifes-unexpected-messenger.html Overview connecting many flavors of #RNA – ie RNAi, siRNA, miRNA & @exRNA

Some bits unclear though – in relation to boundaries betw. siRNA & exRNA

QT:{{”

The RNA in cells is far more mobile than we thought (Image: Renaud Vigourt)

Far from staying put, RNA – the less famous cousin of DNA – can roam far afield, carrying information to other cells in the body and even to other animals

UNDER the soil of the cornfield, the rootworm larvae emerge from their eggs and crawl in search of roots to munch on. But their mother chose the wrong field to lay her eggs in. There’s something special about the maize here – it’s armed with a smart weapon designed to target the rootworms.

As the larvae feed, this weapon is released from the plant and enters their gut cells. There it halts production of a vital protein by blocking one specific gene. In the hours that follow, this “gene silencing” weapon spreads to other cells in the larvae’s bodies. At first there is no …

“}}

Mirsynergy: detecting synergistic #miRNA regulatory modules by… neighborhood expansion
http://www.ncbi.nlm.nih.gov/pubmed/24894504 creates overlapping clusters

#Viruses Reconsidered: Some huge, megabase-scale #genomes but no ribosomes. Usually filtered out in metagenomics
http://www.the-scientist.com/?articles.view/articleNo/39244/title/Viruses-Reconsidered

Phylogenetic…Studies of Informational Genes… Highlight Existence of a 4th Domain of Life Including Giant #Viruses
http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0015530

M. Boyer et al., “Phylogenetic and phyletic studies of informational genes in genomes highlight existence of a 4th domain of life including giant viruses,” PLOS ONE, 5:e15530, 2010.

Clustering polymerase reveals TRUC – new Domains to life

came across this paper: http://genomebiology.com/content/11/2/R14, which uses GO for RNA-seq data analysis
looks interesting – GoSeq !

mostly focussed on microRNAs, but it goes into the role of exRNAs on cancer:
http://www.frontiersin.org/Journal/10.3389/fgene.2013.00173/abstract

http://www.nature.com/ni/journal/v14/n8/full/ni.2647.html