Results 41 to 50 of about 908,392 (296)

Structural and dynamic changes associated with beneficial engineered single-amino-acid deletion mutations in enhanced green fluorescent protein. [PDF]

, 2014
Single-amino-acid deletions are a common part of the natural evolutionary landscape but are rarely sampled during protein engineering owing to limited and prejudiced molecular understanding of mutations that shorten the protein backbone.
Arpino, JA, Jones, DD, Rizkallah, PJ
core   +3 more sources

Structural Characterization of Histone H2A Variants [PDF]

Cold Spring Harbor Symposia on Quantitative Biology, 2004
protein to form chromatin, the fundamental unit of which is the nucleosome core particle (NCP). An NCP consists of two copies each of the four core histones H2A, H2B, H3, and H4. This histone octamer binds 147 base pairs of DNA around its outer surface in 1.65 tight superhelical turns (Fig. 1A) (Luger et al. 1997; Richmond and Davey 2003).
Chakravarthy, S, Bao, Y, Roberts, V A, Tremethick, David, Luger, Karolin   +4 more
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A toy model mimicking cage effect, structural fluctuations and kinetic constraints in supercooled liquids [PDF]

, 2014
The cage effect is widely accepted as the basic microscopic mechanism underlying the physics of supercooled liquids in contrast with usual liquids which are governed by molecular interactions only.
Teboul, Victor
core   +5 more sources

Structural variant calling: the long and the short of it [PDF]

Genome Biology, 2019
AbstractRecent research into structural variants (SVs) has established their importance to medicine and molecular biology, elucidating their role in various diseases, regulation of gene expression, ethnic diversity, and large-scale chromosome evolution—giving rise to the differences within populations and among species. Nevertheless, characterizing SVs
Medhat Mahmoud, Nastassia Gobet, Diana Ivette Cruz-Dávalos, Ninon Mounier, Christophe Dessimoz, Fritz J. Sedlazeck   +5 more
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Deep coverage whole genome sequences and plasma lipoprotein(a) in individuals of European and African ancestries. [PDF]

, 2018
Lipoprotein(a), Lp(a), is a modified low-density lipoprotein particle that contains apolipoprotein(a), encoded by LPA, and is a highly heritable, causal risk factor for cardiovascular diseases that varies in concentrations across ancestries. Here, we use
Alver, Maris, Bloom, Jonathan, Budoff, Matthew, Chaffin, Mark, Correa, Adolfo, Cupples, L Adrienne, Daly, Mark J, Engreitz, Jesse, Ernst, Jason, Esko, Tonu, Fu, Mao, Ganna, Andrea, Handsaker, Robert E, Johnson, W Craig, Kathiresan, Sekar, Kellis, Manolis, Manichaikul, Ani, McCarroll, Steven, Metspalu, Andres, Mitchell, Braxton D, Natarajan, Pradeep, Neale, Benjamin M, NHLBI TOPMed Lipids Working Group, Peloso, Gina M, Post, Wendy, Poterba, Timothy, Rich, Stephen S, Ripatti, Samuli, Rotter, Jerome I, Ruotsalainen, Sanni, Ryan, Kathleen A, Salomaa, Veikko, Seed, Cotton, Surakka, Ida, Tsai, Michael, Vasan, Ramachandran S, Wilson, James G, Yang, Chaojie, Zekavat, Seyedeh M   +38 more
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Histone variants--the structure behind the function [PDF]

Briefings in Functional Genomics and Proteomics, 2006
In recent years, the chromatin field has witnessed a renewed interest in histone variants as pertaining to their structural role, but mainly because of the functional specificity they impart to chromatin. In this review, I am going to discuss several of the most recent structural studies on core histone (H2A.Bbd, H2A.Z, H2A.X, macroH2A, H3.3, CENP-A ...
openaire   +2 more sources

Structural Characterization of the Histone Variant macroH2A [PDF]

Molecular and Cellular Biology, 2005
macroH2A is an H2A variant with a highly unusual structural organization. It has a C-terminal domain connected to the N-terminal histone domain by a linker. Crystallographic and biochemical studies show that changes in the L1 loop in the histone fold region of macroH2A impact the structure and potentially the function of nucleosomes.
Srinivas, Chakravarthy, Sampath Kumar Y, Gundimella, Cecile, Caron, Pierre-Yves, Perche, John R, Pehrson, Saadi, Khochbin, Karolin, Luger   +6 more
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The effects of common structural variants on 3D chromatin structure [PDF]

BMC Genomics, 2020
Abstract Background Three-dimensional spatial organization of chromosomes is defined by highly self-interacting regions 0.1–1 Mb in size termed Topological Associating Domains (TADs). Genetic factors that explain dynamic variation in TAD structure are not understood.
Shanta, Omar, Noor, Amina, Sebat, Jonathan, Chaisson, Mark J. P., Sanders, Ashley D., Zhao, Xuefang, Malhotra, Ankit, Porubsky, David, Rausch, Tobias, Gardner, Eugene J., Rodriguez, Oscar L., Guo, Li, Collins, Ryan L., Fan, Xian, Wen, Jia, Handsaker, Robert E., Fairley, Susan, Kronenberg, Zev N., Kong, Xiangmeng, Hormozdiari, Fereydoun, Lee, Dillon, Wenger, Aaron M., Hastie, Alex R., Antaki, Danny, Anantharaman, Thomas, Audano, Peter A., Brand, Harrison, Cantsilieris, Stuart, Cao, Han, Cerveira, Eliza, Chen, Chong, Chen, Xintong, Chin, Chen-Shan, Chong, Zechen, Chuang, Nelson T., Lambert, Christine C., Church, Deanna M., Clarke, Laura, Farrell, Andrew, Flores, Joey, Galeey, Timur, Gujral, Madhusudan, Guryev, Victor, Heaton, William Haynes, Korlach, Jonas, Kumar, Sushant, Kwon, Jee Young, Spierings, Diana C. J., Xu, Wei, Lansdorp, Peter M.   +49 more
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Structural relaxation of E' gamma centers in amorphous silica

, 2002
We report experimental evidence of the existence of two variants of the E' gamma centers induced in silica by gamma rays at room temperature. The two variants are distinguishable by the fine features of their line shapes in paramagnetic resonance spectra.
A. C. Pineda, C. M. Carbonaro, D. L. Griscom, D. L. Griscom, D. L. Griscom, F. J. Feigl, F. K. Kneubühl, F. M. Gelardi, G. Buscarino, G. Gobsch, G. Hetherington, H. Imai, J. K. Rudra, J. K. Rudra, K. L. Yip, L. Skuja, M. Boero, M. Cannas, M. Cannas, M. Hirai, P. E. Blöchl, R. A. Weeks, R. A. Weeks, R. Boscaino, R. H. Silsbee, S. Agnello, S. Agnello, S. Agnello, S. Agnello, T. Uchino, T. Uchino, T. Uchino, V. A. Mashkov   +32 more
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VarDict: a novel and versatile variant caller for next-generation sequencing in cancer research [PDF]

, 2016
Accurate variant calling in next generation sequencing (NGS) is critical to understand cancer genomes better. Here we present VarDict, a novel and versatile variant caller for both DNA- and RNA-sequencing data.
Ahdesmaki, Miika, Barrett, J. Carl, Chapman, Brad, Dougherty, Brian, Dry, Jonathan R., Hofmann, Oliver, Johnson, Justin, Lai, Zhongwu, Markovets, Aleksandra, McEwen, Robert   +9 more
core   +2 more sources