Archive for the ‘SciLit’ Category

Mind control as a guide for the mind | Nature Human Behaviour

Sunday, August 19th, 2018

Mind control as a guide for the mind | Nature Human Behaviour

https://www.nature.com/articles/s41562-017-0119

Modeling RNA Secondary Structure with Sequence Comparison and Experimental Mapping Data: Biophysical Journal

Saturday, August 18th, 2018

Modeling RNA Secondary Structure with Sequence Comparison &
Experimental Mapping Data
https://www.Cell.com/biophysj/fulltext/S0006-3495(17)30689-6 combines TurboFold sec. structure prediction w/ results of SHAPE assays

Zhen Tan
Gaurav Sharma
David H. Mathews

Open Archive Published:July 20, 2017
DOI:https://doi.org/10.1016/j.bpj.2017.06.039

Addressing the minimum fleet problem in on-demand urban mobility | Nature

Saturday, August 18th, 2018

Addressing the minimum fleet problem in on-demand urban mobility by @mmvazifeh, @stevenstrogatz et al.
https://www.Nature.com/articles/s41586-018-0095-1 Solved by putting taxis & their riders into a large #network

Muons: the little-known particles helping to probe the impenetrable

Saturday, August 18th, 2018

Muons: the little-known particles helping to probe the impenetrable, via @NaturePodcast https://www.Nature.com/articles/d41586-018-05254-2 Using “muography” to see into the ground, beneath volcanos & into pyramids

New study finds cell line difference across labs

Friday, August 17th, 2018

https://www.nature.com/articles/s41586-018-0409-3
QT:{{”
“… comprehensive genomic characterization of 27 strains of the common breast cancer cell line MCF7 uncovered rapid genetic
diversification. Similar results were obtained with multiple strains of 13 additional cell lines.
“}}

genome-wide starr-seq + sources of experimental bias

Monday, August 13th, 2018

quite relevant
https://www.nature.com/articles/nmeth.4534

Resolving systematic errors in widely used enhancer activity assays in human cells

Felix Muerdter
, Łukasz M Boryń
, Ashley R Woodfin
, Christoph Neumayr
, Martina Rath
, Muhammad A Zabidi
, Michaela Pagani
, Vanja Haberle
, Tomáš Kazmar
, Rui R Catarino
, Katharina Schernhuber
, Cosmas D Arnold
& Alexander Stark

Nature Methods volume 15, pages141–149 (2018)

text mining and privacy

Sunday, August 5th, 2018

Don’t quote me: reverse identification of research participants in social media studies

John W. Ayers,
Theodore L. Caputi,
Camille Nebeker &
Mark Dredze

npj Digital Medicine
volume 1, Article number: 30 (2018)

https://www.nature.com/articles/s41746-018-0036-2

Induced Structural Disorder as a Molecular Mechanism for Enzyme Dysfunction in Phosphoglucomutase 1 Deficiency – ScienceDirect

Saturday, July 28th, 2018

Induced Structural Disorder as a Molecular Mechanism for Enzyme Dysfunction in Phosphoglucomutase 1 Deficiency – ScienceDirect https://www.sciencedirect.com/science/article/pii/S0022283616001625

GA4GH’s paper on data sharing

Saturday, July 28th, 2018

Perspective | OPEN | Published: 23 July 2018

Responsible sharing of biomedical data and biospecimens via the “Automatable Discovery and Access Matrix” (ADA-M)

J. Patrick Woolley,
Emily Kirby,
Josh Leslie,
Francis Jeanson,
Moran N. Cabili,
Gregory Rushton,
James G. Hazard,
Vagelis Ladas,
Colin D. Veal,
Spencer J. Gibson,
Anne-Marie Tassé,
Stephanie O. M. Dyke,
Clara Gaff,
Adrian Thorogood,
Bartha Maria Knoppers,
John Wilbanks &
Anthony J. Brookes

npj Genomic Medicinevolume 3, Article number: 17 (2018) | Download Citation

new paper in Nature Genomic Medicine:
https://www.nature.com/articles/s41525-018-0057-4

Journal Club by JG

Friday, July 27th, 2018

TWAS of 229k women identifies new candidate susceptibility genes for breast cancer https://www.Nature.com/articles/s41588-018-0132-x Metascan approach. Derive model for imputing transcriptome from #GTEx & validate against TCGA. Application to BCAC.