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lncPro specifications

Information


Unique identifier OMICS_08475
Name lncPro
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data RNA, protein sequences
Input format FASTA
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Tingting Li <>

Information


Unique identifier OMICS_08475
Name lncPro
Interface Web user interface
Restrictions to use None
Input data RNA, protein sequences
Input format FASTA
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Tingting Li <>

Publication for lncPro

lncPro in publications

 (8)
PMCID: 5751786
PMID: 29297275
DOI: 10.1186/s12859-017-1890-7

[…] significantly associated with at least one biological process term (p < 0.05). additionally, we calculated the interaction scores of the lncrna and protein-coding gene pairs in the module using lncpro [], a software tool used to predict interactions between lncrnas and protein-coding genes. based on the collective evidence from the co-expression analysis and interaction evaluations, […]

PMCID: 5657051
PMID: 29072138
DOI: 10.1186/s12859-017-1819-1

[…] structure, for predicting lncrpis. wang et al. [] developed an extended naive bayes classifier for predicting rpis using only protein and rna sequence information. lu et al. [] developed the lncpro tool for lncrpi prediction based on van der waals propensities, hydrogen bonding and secondary structures extracted from lncrna-protein pairs., cheng et al. [] proposed the pripu approach […]

PMCID: 4792848
PMID: 26917505
DOI: 10.1016/j.gpb.2016.01.004

[…] only sequence information of lncrnas and proteins. support vector machine (svm) classifiers and random forest (rf) are used to predict rbps. in 2013, lu et al. developed a novel approach, named lncpro, which uses secondary structure, hydrogen bond, van der waals force features, and yields the prediction score using fisher’s linear discriminate method. later on, an approach named rpi-pred […]

PMCID: 4709602
PMID: 26839884
DOI: 10.1155/2015/671950

[…] support vector machines (svm) classifiers to predict lncrna-protein interaction and rpiseq only uses the sequence information of lncrnas and proteins. in 2013, lu et al. [] introduced a method named lncpro, which predicts lncrna-protein interactions by using scores yielded by amino acid and nucleotide sequences and fisher's linear discriminant method., in this paper, we introduce a network-based […]

PMCID: 5029621
PMID: 27036039
DOI: 10.18632/oncotarget.6745

[…] might affect gene expression in such a manner. to test this, first, according to a description by lu q et al. [], we used bioinformatics to predict this possibility (http://bioinfo.bjmu.edu.cn/lncpro/). as shown in figure , using lncrna hotair as a positive control, the predicted binding scores between linc00668 and prc2 (ezh2/suz12) were fairly high. to validate this possibility, rna […]


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lncPro institution(s)
Department of Biomedical Informatics, School of Basic Medical Sciences, Peking University Health Science Center, Beijing, China

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