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Number of citations per year for the bioinformatics software tool MemBrain
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Protocols

MemBrain specifications

Information


Unique identifier OMICS_05165
Name MemBrain
Interface Web user interface
Restrictions to use None
Input data A protein sequence.
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Hong-Bin Shen

Additional information


http://www.csbio.sjtu.edu.cn/bioinf/MemBrain/Readme.htm

Publications for MemBrain

MemBrain citations

 (18)
call_split

Age Related Differences in Hearing Function and Cochlear Morphology between Male and Female Fischer 344 Rats

2018
PMCID: 5758597
PMID: 29354051
DOI: 10.3389/fnagi.2017.00428
call_split See protocol

[…] s used for cochlear whole mounts in some animals.For whole mount preparation the bone of the cochlear wall and tectorial membrane were removed gradually from the cochlear apex to the base and basilar membrain together with organ of Corti was microdissected into four pieces per each cochlea. Cochlear whole mounts then were stained with anti-C-terminal binding protein 2 antibodies (anti-CtBP2, BDTra […]

library_books

Negative charge and membrane tethered viral 3B cooperate to recruit viral RNA dependent RNA polymerase 3Dpol

2017
Sci Rep
PMCID: 5725453
PMID: 29230036
DOI: 10.1038/s41598-017-17621-6

[…] ineered a biomimetic recombinant 3A viral protein. The 3A protein is myristoylated at the N-terminal glycine residue and also contains a hydrophobic region that every algorithm tested (CCTOP, HMMTOP, MemBrain, Memsat, Octopus, Philius, Phobius, Pro, Prodiv, Scampi, ScampiMsa, and TMHMM) predicts as a transmembrane helix that could anchor 3A protein in the lipid bilayer (Fig.  upper panel). This is […]

library_books

Approaches to ab initio molecular replacement of α helical transmembrane proteins

2017
Acta Crystallogr D Struct Biol
PMCID: 5713875
PMID: 29199978
DOI: 10.1107/S2059798317016436

[…] Solution was then attempted with models built with the assistance of contact predictions from CCMPRED, MEMBRAIN or METAPSICOV_S1. The results are summarized in Fig. 1, with graphical summaries of the results shown in Supplementary Figs. S8, S10 and S12, and analyses of the TM scores shown in Supplement […]

library_books

Predictive Structure and Topology of Peroxisomal ATP Binding Cassette (ABC) Transporters

2017
Int J Mol Sci
PMCID: 5536080
PMID: 28737695
DOI: 10.3390/ijms18071593

[…] helix known as the membrane peroxisomal targeting signal (mPTS) and helices found in the NBD. MemSat [], used in the CCTOP and PSIPRED servers, as well as MINNOU [], were able to predict 5 to 6 TMHs. MemBrain [], a tool with improved ability in correctly identifying the ends of TMHs and which is also used in the CCTOP server, detected six to seven TMHs. While a consensus emerged for the positions […]

library_books

Characterization of Ghrelin O Acyltransferase (GOAT) in goldfish (Carassius auratus)

2017
PLoS One
PMCID: 5298278
PMID: 28178327
DOI: 10.1371/journal.pone.0171874

[…] d 1.10. Most servers gave very different results and predicted a very different number of TMDs; the range was from 5 to 11 for GOAT-V1 and from 5 to 9 for GOAT-V2. Among the different servers tested, MemBrain [,] and MEMSAT-SVM [] incorporate newer machine-learning algorithms, phylogeny and PSI-BLAST strategies, and current knowledge on membrane protein structure, such as short and very long helic […]

library_books

Computational Approaches for Revealing the Structure of Membrane Transporters: Case Study on Bilitranslocase

2017
Comput Struct Biotechnol J
PMCID: 5312651
PMID: 28228927
DOI: 10.1016/j.csbj.2017.01.008

[…] ntification of four TM helices: TM1 (24–45), TM2 (73–95), TM3 (221–238) and TM4 (258–277). Only three algorithms (PredαTM, TMpred and TopPred II) predict all four TM regions. The algorithms PRED-TMR, MemBrain and Philius predict the transmembrane regions TM1, TM2 and TM4. On the other hand, the predictors HMMTOP, SCAMPI and TOPCONS predict the transmembrane regions TM1, TM3 and TM4. The rest of th […]


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MemBrain institution(s)
Institute of Image Processing and Pattern Recognition, Shanghai Jiao Tong University, and Key Laboratory of System Control and Information Processing, Ministry of Education of China, Shanghai, China
MemBrain funding source(s)
Supported by the National Natural Science Foundation of China (No. 61671288, 91530321, 61603161), and Science and Technology Commission of Shanghai Municipality (No. 16JC1404300, 17JC1403500).

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