Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534
Deprecated: Implicit conversion from float 211.6 to int loses precision in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 534
Warning: imagejpeg(C:\Inetpub\vhosts\kidney.de\httpdocs\phplern\26950055
.jpg): Failed to open stream: No such file or directory in C:\Inetpub\vhosts\kidney.de\httpdocs\pget.php on line 117 J+Comput+Biol
2016 ; 23
(4
): 291-7
Nephropedia Template TP
gab.com Text
Twit Text FOAVip
Twit Text #
English Wikipedia
MoCha: Molecular Characterization of Unknown Pathways
#MMPMID26950055
Lobo D
; Hammelman J
; Levin M
J Comput Biol
2016[Apr]; 23
(4
): 291-7
PMID26950055
show ga
Automated methods for the reverse-engineering of complex regulatory networks are
paving the way for the inference of mechanistic comprehensive models directly
from experimental data. These novel methods can infer not only the relations and
parameters of the known molecules defined in their input datasets, but also
unknown components and pathways identified as necessary by the automated
algorithms. Identifying the molecular nature of these unknown components is a
crucial step for making testable predictions and experimentally validating the
models, yet no specific and efficient tools exist to aid in this process. To this
end, we present here MoCha (Molecular Characterization), a tool optimized for the
search of unknown proteins and their pathways from a given set of known
interacting proteins. MoCha uses the comprehensive dataset of protein-protein
interactions provided by the STRING database, which currently includes more than
a billion interactions from over 2,000 organisms. MoCha is highly optimized,
performing typical searches within seconds. We demonstrate the use of MoCha with
the characterization of unknown components from reverse-engineered models from
the literature. MoCha is useful for working on network models by hand or as a
downstream step of a model inference engine workflow and represents a valuable
and efficient tool for the characterization of unknown pathways using known data
from thousands of organisms. MoCha and its source code are freely available
online under the GPLv3 license.
free
free
free
