A Branch-and-Reduce Algorithm for the Contact Map Overlap Problem

2006 ◽  
pp. 516-529 ◽  
Author(s):  
Wei Xie ◽  
Nikolaos V. Sahinidis
Keyword(s):  
Contact Map

A Divide-and-Conquer Strategy for the Prediction of Protein Contact Map

2014 ◽  
Vol 12 (2) ◽  
pp. 124-130 ◽  
Author(s):  
Cosme Santiesteban-Toca ◽  
Gerardo Casanola-Martin ◽  
Jesus Aguilar-Ruiz
Keyword(s):  
Divide And Conquer ◽  
Contact Map

scholarly journals Contact map based crystal structure prediction using global optimization

CrystEngComm ◽  
2021 ◽  
Author(s):  
Jianjun Hu ◽  
Wenhui Yang ◽  
Rongzhi Dong ◽  
Yuxin Li ◽  
Xiang Li ◽  
...  
Keyword(s):  
Crystal Structure ◽  
Global Optimization ◽  
Crystal Engineering ◽  
Structure Prediction ◽  
Crystal Structure Prediction ◽  
New Materials ◽  
Contact Map

Crystal structure prediction is now playing an increasingly important role in the discovery of new materials or crystal engineering.

A similarity matrix-based hybrid algorithm for the contact map overlaps problem

2011 ◽  
Vol 41 (5) ◽  
pp. 247-252 ◽  
Author(s):  
Hengyun Lu ◽  
Genke Yang ◽  
Lam Fat Yeung
Keyword(s):  
Hybrid Algorithm ◽  
Similarity Matrix ◽  
Contact Map

scholarly journals From Hi-C Contact Map to Three-Dimensional Organization of Interphase Human Chromosomes

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Guang Shi ◽  
D. Thirumalai
Keyword(s):  
Three Dimensional ◽  
Human Chromosomes ◽  
Contact Map

Inter-protein contact map generated only from intra-monomer by image inpainting

2021 ◽  
Author(s):  
He Huang ◽  
Chengshi Zeng ◽  
Xinqi Gong
Keyword(s):  
Image Inpainting ◽  
Contact Map

scholarly journals Establishment of signaling interactions with cellular resolution for every cell cycle of embryogenesis

2018 ◽  
Author(s):  
Long Chen ◽  
Vincy Wing Sze Ho ◽  
Ming-Kin Wong ◽  
Xiaotai Huang ◽  
Lu-yan Chan ◽  
...  
Keyword(s):  
Cell Cycle ◽  
Notch Signaling ◽  
Cell Lineage ◽  
Cellular Interaction ◽  
Cell Contact ◽  
Contact Map ◽  
C Elegans ◽  
Cellular Resolution ◽  
Signaling Interactions ◽  
Lineage Analysis

AbstractIntercellular signaling interaction plays a key role in breaking fate symmetry during animal development. Identification of the signaling interaction at cellular resolution is technically challenging, especially in a developing embryo. Here we develop a platform that allows automated inference and validation of signaling interaction for every cell cycle of C. elegans embryogenesis. This is achieved by generation of a systems-level cell contact map that consists of 1,114 highly confident intercellular contacts by modeling analysis and is validated through cell membrane labeling coupled with cell lineage analysis. We apply the map to identify cell pairs between which a Notch signaling interaction takes place. By generating expression patterns for two ligands and two receptors of Notch signaling pathway with cellular resolution using automated expression profiling technique, we are able to refine existing and identify novel Notch interactions during C. elegans embryogenesis. Targeted cell ablation followed by cell lineage analysis demonstrates the roles of signaling interactions over cell division in breaking fate symmetry. We finally develop a website that allows online access to the cell-cell contact map for mapping of other signaling interaction in the community. The platform can be adapted to establish cellular interaction from any other signaling pathways.

scholarly journals Protein contact map prediction using multi-stage hybrid intelligence inference systems

2012 ◽  
Vol 45 (1) ◽  
pp. 173-183 ◽  
Author(s):  
Anas A. Abu-Doleh ◽  
Omar M. Al-Jarrah ◽  
Asem Alkhateeb
Keyword(s):  
Contact Map ◽  
Multi Stage ◽  
Hybrid Intelligence ◽  
Inference Systems

scholarly journals Identification of residue pairing in interacting β-strands from a predicted residue contact map

2018 ◽  
Vol 19 (1) ◽  
Author(s):  
Wenzhi Mao ◽  
Tong Wang ◽  
Wenxuan Zhang ◽  
Haipeng Gong
Keyword(s):  
Contact Map ◽  
Residue Contact

Prediction of protein flexibility using a conformationally restrained contact map

2018 ◽  
Vol 86 (10) ◽  
pp. 1111-1116
Author(s):  
Rebecca Vera ◽  
Melissa Synsmir-Zizzamia ◽  
Sarah Ojinnaka ◽  
David A. Snyder
Keyword(s):  
Protein Flexibility ◽  
Contact Map ◽  
Conformationally Restrained
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