Posts Tagged ‘fromtalk’

IBM pitched Watson as a revolution in cancer care. It’s nowhere close

June 6, 2018

https://www.statnews.com/2017/09/05/watson-ibm-cancer/

Genic Intolerance to Functional Variation and the Interpretation of Personal Genomes

February 24, 2018

Genic Intolerance to Functional Variation & the Interpretation of Personal Genomes
http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1003709 Nice plot of the number of rare v common variants in each gene to find outliers particularly tolerant to impactful (eg #LOF) mutations

http://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1003709

Petrovski et al ’13

Credit scores, cardiovascular disease risk, and human capital | Proceedings of the National Academy of Sciences

February 20, 2018

Credit scores, cardiovascular disease risk & human capital
http://www.PNAS.org/content/111/48/17087 Non-obvious correlations creating potential #privacy risks

Evogeneao: The Tree of Life

December 2, 2017

Evogeneao: The Tree of Life
https://www.evogeneao.com/explore/tree-of-life-explorer Nice web tool. Particularly good for interactively #visualizing human #evolution relative to that of other species

Cryo-EM Structures of the Magnesium Channel CorA Reveal Symmetry Break upon Gating – ScienceDirect

November 30, 2017

QT:{{”
• Find 3.8 Å resolution cryo-EM structure of the ∼200 kDa magnesium channel CorA • Mg2+-free CorA exhibits dramatic loss of symmetry in the cytoplasmic domain …
• Inter-subunit Mg2+ is important for stabilizing the closed state of CorA “}}

#CryoEM Structures of the Mg++ Channel CorA Reveal Symmetry Break upon Gating https://www.ScienceDirect.com/science/article/pii/S0092867415017195 In closed conformation: 5 identical subunits arranged tightly around 5-fold axis & pore. In open: they lose bridging ions & open to differing degrees with helix-hinging motions.

Matthies D1, Dalmas O2, Borgnia MJ1, Dominik PK2, Merk A1, Rao P1, Reddy BG2, Islam S2, Bartesaghi A1, Perozo E3, Subramaniam S4. Cell. 2016 Feb 11;164(4):747-56. doi: 10.1016/j.cell.2015.12.055.

Atomic structure of the entire mammalian mitochondrial complex I | Nature

November 25, 2017

Atomic structure of the entire mammalian mitochondrial complex I https://www.Nature.com/articles/nature19794 Synthesizing #cryoEM w/ (high-FP) cross-linking data to gets a 3.9A structure w/ 78 helices

Fiedorczuk, K., Letts, J.A., Degliesposti, G., Kaszuba, K., Skehel, M., Sazanov, L.A. (2016) Atomic structure of the entire mammalian mitochondrial complex I. Nature 538; 406-410.

related to:
• Letts, J.A., Fiedorczuk, K., Sazanov, L.A. (2016) The architecture of respiratory supercomplexes. Nature 537; 644-648.

Quantifying the local resolution of cryo-EM density maps | Nature Methods

November 14, 2017

Quantifying the local resolution of #cryoEM density maps
https://www.Nature.com/articles/nmeth.2727 “Theory…based on the following idea: a L Angstrom feature exists at a pt…if a 3D local sinusoid of wavelength L is statistically detectable above noise at that point.”

QT:{{”
We propose a mathematical theory and an efficient algorithm for measuring local resolution that address all of the above limitations. The theory (Online Methods) is based on the following idea: a λ-Å feature exists at a point in the volume if a three-dimensional (3D) local sinusoid of wavelength λ is statistically detectable above noise at that point. A likelihood-ratio hypothesis test of the local sinusoid versus noise can detect this feature at a given P value (typically P = 0.05). We define the local resolution at a point as the smallest λ at which the local sinusoid is detectable, and we account for multiple testing with an FDR procedure.
“}}

Comparative analysis of three-dimensional chromosomal architecture identifies a novel fetal hemoglobin regulatory element. – PubMed – NCBI

October 30, 2017

Comparative…3D chromosomal architecture identifies a novel fetal Hb reg. element http://GenesDev.cshlp.org/content/31/16/1704.abstract #Pseudogene shifts v. promotor

Welcome | ScienceHill-CryoEM

October 28, 2017

http://sciencehill-cryoem.yale.edu/
cryoem.yale.edu
https://medicine.yale.edu/ccmi/

Visualizing the molecular sociology at the HeLa cell nuclear periphery | Science

October 26, 2017

http://science.sciencemag.org/content/351/6276/969.long

#Visualizing the molecular sociology [of complexes] at the HeLa cell nuclear periphery, w/ #CryoET at 10 Ang. res. http://science.ScienceMag.org/content/351/6276/969.long

Science. 2016 Feb 26;351(6276):969-72. doi: 10.1126/science.aad8857.
Visualizing the molecular sociology at the HeLa cell nuclear periphery.
Mahamid J1, Pfeffer S2, Schaffer M2, Villa E3, Danev R2, Cuellar LK2, Förster F2, Hyman AA4, Plitzko JM2, Baumeister W1.