scholarly journals DeepSE: Detecting super-enhancers among typical enhancers using only sequence feature embeddings

Genomics ◽  
2021 ◽  
Author(s):  
Qiao-Ying Ji ◽  
Xiu-Jun Gong ◽  
Hao-Min Li ◽  
Pu-Feng Du
Keyword(s):  
Sequence Feature

scholarly journals Valence and patterning of aromatic residues determine the phase behavior of prion-like domains

Science ◽  
2020 ◽  
Vol 367 (6478) ◽  
pp. 694-699 ◽  
Author(s):  
Erik W. Martin ◽  
Alex S. Holehouse ◽  
Ivan Peran ◽  
Mina Farag ◽  
J. Jeremias Incicco ◽  
...  
Keyword(s):  
Phase Behavior ◽  
Resonance Spectroscopy ◽  
Multiscale Simulations ◽  
Sequence Feature ◽  
Temperature Dependent ◽  
Aromatic Residues ◽  
X Ray ◽  
X Ray Scattering ◽  
Biophysical Approach ◽  
Liquid Liquid Phase Separation

Prion-like domains (PLDs) can drive liquid-liquid phase separation (LLPS) in cells. Using an integrative biophysical approach that includes nuclear magnetic resonance spectroscopy, small-angle x-ray scattering, and multiscale simulations, we have uncovered sequence features that determine the overall phase behavior of PLDs. We show that the numbers (valence) of aromatic residues in PLDs determine the extent of temperature-dependent compaction of individual molecules in dilute solutions. The valence of aromatic residues also determines full binodals that quantify concentrations of PLDs within coexisting dilute and dense phases as a function of temperature. We also show that uniform patterning of aromatic residues is a sequence feature that promotes LLPS while inhibiting aggregation. Our findings lead to the development of a numerical stickers-and-spacers model that enables predictions of full binodals of PLDs from their sequences.

Ecological Network Evolving Research on Suzhou Greenbelt in the Process of Urban and Rural Integration

2012 ◽  
Vol 174-177 ◽  
pp. 2298-2301
Author(s):  
Ling Yun Fan
Keyword(s):  
Remote Sensing ◽  
Spatial Distribution ◽  
Rural Area ◽  
Spatial Planning ◽  
Green Space ◽  
Basic Information ◽  
Ecological Network ◽  
Sequence Feature ◽  
System Planning ◽  
Data Statistics

Using remote sensing(RS) technique, this paper attempts to extract the greenbelt information in city and countryside of Suzhou in 1986, 1998 and 2006.Based on the data statistics of RS, it also analyzes the spatial sequence feature of Suzhou greenbelt ecological network evolving in the process of urban and rural integration from the spatial distribution, quantity change and reducing speed of green space, to provide basic information for greenbelt system planning of urban and rural integration, and foundation for space governance and spatial planning in city and rural area.

Comparative analysis of sequence feature and expression of two heat shock cognate 70 genes in mandarin fish Siniperca chuatsi

Gene ◽  
2015 ◽  
Vol 560 (2) ◽  
pp. 226-236 ◽  
Author(s):  
Pengfei Wang ◽  
Peng Xu ◽  
Shuang Zeng ◽  
Lei Zhou ◽  
Lei Zeng ◽  
...  
Keyword(s):  
Comparative Analysis ◽  
Heat Shock ◽  
Sequence Feature ◽  
Mandarin Fish ◽  
Siniperca Chuatsi ◽  
Heat Shock Cognate 70

scholarly journals Classifying Genomic Sequences by Sequence Feature Analysis

2005 ◽  
Vol 3 (4) ◽  
pp. 201-205 ◽  
Author(s):  
Zhi-Hua Liu ◽  
Dian Jiao ◽  
Xiao Sun
Keyword(s):  
Feature Analysis ◽  
Genomic Sequences ◽  
Sequence Feature
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