linkstream2 microblog

http://www.pnas.org/content/110/29/11952

http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12337.html#

QT:”
We have taken the first steps towards a complete reconstruction of the Mycobacterium tuberculosis regulatory network based on ChIP-Seq and combined this reconstruction with system-wide profiling of messenger RNAs, proteins, metabolites and lipids during hypoxia and re-aeration. …Using ChIP-Seq combined with expression
data from the induction of the same factors, we have reconstructed a draft regulatory network based on 50 transcription factors….The regulatory network reveals transcription factors
underlying these changes, allows us to computationally predict expression changes, and indicates that Rv0081 is a regulatory hub. “

Dead or Alive? Pseudoenzymes resemble #enzymes but difficult to pin down functionally http://www.sciencemag.org/content/340/6128/27.full #pseudogene

http://www.sciencemag.org/content/340/6128/27.full
Science 5 April 2013:
Vol. 340 no. 6128 p. 27
DOI: 10.1126/science.340.6128.27
NEWS FOCUS
Dead or Alive?

Biological Physics: Energy, Information, Life – Good intuition for free energy as max laziness & max sloppiness!
http://www.math.colostate.edu/~yzhou/course/math676_spring2013/biophys_Nelson.pdf

Vascularized and functional human liver from an iPSC-derived organ bud transplant
http://www.nature.com/nature/journal/vaop/ncurrent/full/nature12271.html

Hinds et al. from 23andme

http://www.nature.com/ng/journal/vaop/ncurrent/full/ng.2686.html

http://www.nature.com/nbt/journal/v31/n6/full/nbt.2594.html

QT:
Despite its financial woes, deCode has begun to pay off, not in money, but in science. About 10 years ago its scientists co-discovered the association of the neuroregulin 1 (NRG1) gene with schizophrenia, and they have had some more modest successes with other diseases. But last week, deCode produced not only its most important genetic finding to date, but also quite possibly the most important genetic finding in Alzheimer’s disease in the last 20 years.

To be fair, the company had plenty of help. Coauthors of their paper, “A mutation in APP protects against Alzheimer’s disease and
age-related cognitive decline” … the key to the study rests on two things: the use of genetically defined populations, and genome sequencing and analysis based on a specific hypothesis.
”

http://genomebiology.com/2012/13/10/176

Nice overview of #Alzheimer’s research giving context for deCode’s finding of a protective APP mutation
http://genomebiology.com/2012/13/10/176

QT:
Despite numerous examples of the enormous value of model organism research, many scientists and scientific administrators seem to think that nothing lower than a mouse is suitable for cutting-edge biology anymore.
”
http://genomebiology.com/2011/12/5/115

Hand drawn figures in PubMed central

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3261217/

not actually not that much worse than those in the final MS:

http://www.cell.com/retrieve/pii/S0092867411010853#MainText