SWISS-MODEL: modelling protein tertiary and quaternary structure using evolutionary information

M Biasini, S Bienert, A Waterhouse… - Nucleic acids …, 2014 - academic.oup.com
Protein structure homology modelling has become a routine technique to generate 3D
models for proteins when experimental structures are not available. Fully automated servers …

Whole-genome sequencing of 234 bulls facilitates mapping of monogenic and complex traits in cattle

HD Daetwyler, A Capitan, H Pausch, P Stothard… - Nature …, 2014 - nature.com
The 1000 bull genomes project supports the goal of accelerating the rates of genetic gain in
domestic cattle while at the same time considering animal health and welfare by providing …

Genome-scale metabolic modelling of hepatocytes reveals serine deficiency in patients with non-alcoholic fatty liver disease

A Mardinoglu, R Agren, C Kampf, A Asplund… - Nature …, 2014 - nature.com
Several liver disorders result from perturbations in the metabolism of hepatocytes, and their
underlying mechanisms can be outlined through the use of genome-scale metabolic models …

ModBase, a database of annotated comparative protein structure models and associated resources

U Pieper, BM Webb, GQ Dong… - Nucleic acids …, 2014 - academic.oup.com
Abstract ModBase (http://salilab. org/modbase) is a database of annotated comparative
protein structure models. The models are calculated by ModPipe, an automated modeling …

Understanding and identifying amino acid repeats

H Luo, H Nijveen - Briefings in bioinformatics, 2014 - academic.oup.com
Amino acid repeats (AARs) are abundant in protein sequences. They have particular roles in
protein function and evolution. Simple repeat patterns generated by DNA slippage tend to …

Intrinsically disordered segments affect protein half-life in the cell and during evolution

R van der Lee, B Lang, K Kruse, J Gsponer… - Cell reports, 2014 - cell.com
Precise control of protein turnover is essential for cellular homeostasis. The ubiquitin-
proteasome system is well established as a major regulator of protein degradation, but an …

Architecture of the large subunit of the mammalian mitochondrial ribosome

BJ Greber, D Boehringer, A Leitner, P Bieri… - Nature, 2014 - nature.com
Mitochondrial ribosomes synthesize a number of highly hydrophobic proteins encoded on
the genome of mitochondria, the organelles in eukaryotic cells that are responsible for …

SUBAcon: a consensus algorithm for unifying the subcellular localization data of the Arabidopsis proteome

CM Hooper, SK Tanz, IR Castleden, MA Vacher… - …, 2014 - academic.oup.com
Motivation: Knowing the subcellular location of proteins is critical for understanding their
function and developing accurate networks representing eukaryotic biological processes …

The Path to Triacylglyceride Obesity in the sta6 Strain of Chlamydomonas reinhardtii

U Goodenough, I Blaby, D Casero, SD Gallaher… - Eukaryotic …, 2014 - Am Soc Microbiol
When the sta6 (starch-null) strain of the green microalga Chlamydomonas reinhardtii is
nitrogen starved in acetate and then “boosted” after 2 days with additional acetate, the cells …

Lysine deacetylase (KDAC) regulatory pathways: an alternative approach to selective modulation

MW Van Dyke - ChemMedChem, 2014 - Wiley Online Library
Protein lysine deacetylases (KDACs), including the classic Zn2+‐dependent histone
deacetylases (HDACs) and the nicotinamide adenine dinucleotide (NAD+)‐requiring …