The structural repertoire of the human V kappa domain. – PubMed – NCBI

May 16, 2017

https://www.ncbi.nlm.nih.gov/pubmed/7556106


Standard conformations for the canonical structures of immunoglobulins. – PubMed – NCBI

May 16, 2017

https://www.ncbi.nlm.nih.gov/pubmed/9367782


Conformations of the third hypervariable region in the VH domain of immunoglobulins. – PubMed – NCBI

May 16, 2017

https://www.ncbi.nlm.nih.gov/pubmed/9466909


Was North Korea Behind Last Week’s Global Cyberattack? – The Atlantic

May 16, 2017

https://www.theatlantic.com/news/archive/2017/05/was-north-korea-behind-last-weeks-cyberattack/526824/?utm_source=atltw


Same Stats, Different Graphs: Generating Datasets with Varied Appearance and Identical Statistics through Simulated Annealing (The Datasaurus Dozen) | Autodesk Research

May 15, 2017

https://www.autodeskresearch.com/publications/samestats

https://twitter.com/JustinMatejka/status/859075295059562498

great viz


Intersection of diverse neuronal genomes and neuropsychiatric disease: The Brain Somatic Mosaicism Network | Science

May 15, 2017

The #Brain #Somatic Mosaicism Network
http://science.ScienceMag.org/content/356/6336/eaal1641 Long lifespan of neurons accentuates impact of individual somatic mutations

QT:{{”
Neuropsychiatric disorders have a complex genetic architecture. Human genetic population-based studies have identified numerous heritable sequence and structural genomic variants associated with
susceptibility to neuropsychiatric disease. However, these germline variants do not fully account for disease risk. During brain development, progenitor cells undergo billions of cell divisions to generate the ~80 billion neurons in the brain. The failure to accurately repair DNA damage arising during replication,
transcription, and cellular metabolism amid this dramatic cellular expansion can lead to somatic mutations. Somatic mutations that alter subsets of neuronal transcriptomes and proteomes can, in turn, affect cell proliferation and survival and lead to neurodevelopmental disorders. The long life span of individual neurons and the direct relationship between neural circuits and behavior suggest that somatic mutations in small populations of neurons can significantly affect individual neurodevelopment. The Brain Somatic Mosaicism Network has been founded to study somatic mosaicism both in neurotypical human brains and in the context of complex neuropsychiatric disorders.” “}}


Bit by Bit: The Darwinian Basis of Life

May 15, 2017

Bit by Bit: The #Darwinian Basis of Life
http://www.PLoSBiology.org/article/info%3Adoi%2F10.1371%2Fjournal.pbio.1001323 Overview of the amount of generated information in replicating molecules

QT:{{”
“The number of possible compositions is xn. If these are all equally probable, then each has a prior probability of occurrence of x−n, and the information content (number of bits) associated with a particular realized composition is log2(xn). This can also be expressed as 2#bits = xn. For a binary polymer, #bits = n; for a nucleic acid polymer, #bits = 2n.

If the various compositions do not have the same prior probability of occurrence, then the information content associated with a particular realized composition must be calculated based on its prior probability of occurrence (pk), which ranges from 0 to 1. The information content (number of bits) associated with a particular realized composition is −log2(pk).”
“}}

Gerald F. Joyce
Published: May 8, 2012
https://doi.org/10.1371/journal.pbio.1001323


Naive Bayes Classification explained with Python code

May 15, 2017

Naive #Bayes Classification explained with Python code
http://www.DataScienceCentral.com/profiles/blogs/naive-bayes-classification-explained-with-python-code Nice worked example; good for #teaching HT @KirkDBorne


Thoughts on last week’s conferences GP-Write & BoG ’17

May 15, 2017

TWEETS

https://storify.com/markgerstein/favorite-tweets-from-bog-17-gp-write-ib.html

TAGGED ITEMS

https://linkstream2.gerstein.info/tag/i0gpwrite/

SLIDES

http://lectures.gersteinlab.org/summary/Scaling-Computation-to-Keep-Pace-w-Data-Gen–20170510-i0gpwrite/


An Economic Framework of Microbial Trade

May 15, 2017

http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0132907