Visualization of Protein Sequences Using the Two-Dimensional Hydrophobic Cluster Analysis Method

1995 ◽  
pp. 129-144
Author(s):  
Michel T. Semertzidis ◽  
Etienne Thoreau ◽  
Anne Tasso ◽  
Bernard Henrissat ◽  
Isabelle Callebaut ◽  
...  
Keyword(s):  
Cluster Analysis ◽  
Protein Sequences ◽  
Two Dimensional ◽  
Analysis Method ◽  
Hydrophobic Cluster Analysis ◽  
Hydrophobic Cluster ◽  
Cluster Analysis Method

Hydrophobic cluster analysis: procedures to derive structural and functional information from 2-D-representation of protein sequences

Biochimie ◽  
1990 ◽  
Vol 72 (8) ◽  
pp. 555-574 ◽  
Author(s):  
L. Lemesle-Varloot ◽  
B. Henrissat ◽  
C. Gaboriaud ◽  
V. Bissery ◽  
A. Morgat ◽  
...  
Keyword(s):  
Cluster Analysis ◽  
Protein Sequences ◽  
Functional Information ◽  
Hydrophobic Cluster Analysis ◽  
Hydrophobic Cluster

scholarly journals Hydrophobic-cluster analysis of plant protein sequences. A domain homology between storage and lipid-transfer proteins

1988 ◽  
Vol 255 (3) ◽  
pp. 901-905 ◽  
Author(s):  
B Henrissat ◽  
Y Popineau ◽  
J C Kader
Keyword(s):  
Cluster Analysis ◽  
Storage Proteins ◽  
Spinacia Oleracea ◽  
Protein Sequences ◽  
Protein Chain ◽  
Lipid Transfer ◽  
Lipid Transfer Proteins ◽  
Conserved Domains ◽  
Hydrophobic Cluster Analysis ◽  
Hydrophobic Cluster

Hydrophobic-cluster analysis was used to characterize a conserved domain located near the C-terminal amino acid sequence of wheat (Triticum aestivum) storage proteins. This domain was transformed into a linear template for a global search for similarities in over 5200 protein sequences. In addition to proteins that had already been found to exhibit homology to wheat storage proteins, a previously unreported homology was found with non-specific lipid-transfer proteins from castor bean (Ricinus communis) and from spinach (Spinacia oleracea) leaf. Hydrophobic-cluster analysis of various members of the present protein group clearly shows a typical domain structure where (i) variable and conserved domains are located along the sequence at precise positions, (ii) the conserved domains probably reflect a common ancestor, and (iii) the unique properties of a given protein (chain cut into subunits, repetitive domains, trypsin-inhibitor active site) are associated with the variable domains.

Efficient Cluster Analysis Method for Protein Sequences

2011 ◽  
Vol 22 (8) ◽  
pp. 1827-1837 ◽  
Author(s):  
Dong-Ming TANG ◽  
Qing-Xin ZHU ◽  
Fan YANG ◽  
Ke CHEN
Keyword(s):  
Cluster Analysis ◽  
Protein Sequences ◽  
Analysis Method ◽  
Cluster Analysis Method

scholarly journals Order in Disorder as Observed by the “Hydrophobic Cluster Analysis” of Protein Sequences

PROTEOMICS ◽  
2018 ◽  
Vol 18 (21-22) ◽  
pp. 1800054 ◽  
Author(s):  
Tristan Bitard-Feildel ◽  
Alexis Lamiable ◽  
Jean-Paul Mornon ◽  
Isabelle Callebaut
Keyword(s):  
Cluster Analysis ◽  
Protein Sequences ◽  
Hydrophobic Cluster Analysis ◽  
Hydrophobic Cluster

scholarly journals HCAtk and pyHCA: A Toolkit and Python API for the Hydrophobic Cluster Analysis of Protein Sequences

2018 ◽  
Author(s):  
Tristan Bitard-Feildel ◽  
Isabelle Callebaut
Keyword(s):  
Cluster Analysis ◽  
Protein Domains ◽  
Protein Sequences ◽  
Command Line ◽  
Challenging Problem ◽  
Hydrophobic Cluster Analysis ◽  
Intrinsically Disordered ◽  
Intrinsically Disordered Regions ◽  
Hydrophobic Cluster ◽  
Link Type

AbstractMotivation: Detecting protein domains sharing no similarity to known domains, as stored in domain databases, is a challenging problem, particularly for unannotated proteomes, domains emerged recently, fast diverging proteins or domains with intrinsically disordered regions.Results: We developed pyHCA and HCAtk, a python API and standalone tool gathering together improved versions of previously developed methodologies, with new functionalities. The developed tools can be either used from command line or from a python API.Availability: HCAtk and pyHCA are available at https://github.com/T-B-F/pyHCA under the CeCILL-C license.

MANSEK and SUNHCA. Two interactive programs for the hydrophobic cluster analysis of protein sequences

1993 ◽  
Vol 9 (1) ◽  
pp. 37-44 ◽  
Author(s):  
L. Lemesle-Varloot ◽  
C. Gaboriaud ◽  
A. Morgat ◽  
G. Pantel ◽  
J. P. Mornon ◽  
...  
Keyword(s):  
Cluster Analysis ◽  
Protein Sequences ◽  
Hydrophobic Cluster Analysis ◽  
Hydrophobic Cluster

scholarly journals Detection of drought events in Greece using daily precipitation

2010 ◽  
Vol 41 (2) ◽  
pp. 126-133 ◽  
Author(s):  
N. Kalamaras ◽  
H. Michalopoulou ◽  
H. R. Byun
Keyword(s):  
Cluster Analysis ◽  
Hierarchical Cluster Analysis ◽  
Daily Precipitation ◽  
Hierarchical Cluster ◽  
Seasonal Distribution ◽  
Drought Severity ◽  
Severe Drought ◽  
Analysis Method ◽  
Cluster Analysis Method ◽  
Insight Into

In this study a method proposed by Byun & Wilhite, which estimates drought severity and duration using daily precipitation values, is applied to data from stations at different locations in Greece. Subsequently, a series of indices is calculated to facilitate the detection of drought events at these sites. The results provide insight into the trend of drought severity in the region. In addition, the seasonal distribution of days with moderate and severe drought is examined. Finally, the Hierarchical Cluster Analysis method is used to identify sites with similar drought features.

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