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chevron_left Variant effect prediction Gene prediction Multiple nucleotide sequence alignment Secondary structure prediction Protein-coding gene prediction Structural motif detection Protein-DNA interaction prediction Subcellular localization prediction Pairwise nucleotide sequence alignment Bioinformatics workflows chevron_right
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MolQuest specifications


Unique identifier OMICS_26975
Name MolQuest
Software type Toolkit/Suite
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Medium
Version 2.4.5
Stability Stable
Maintained Yes



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MolQuest in publications

PMCID: 5711826
PMID: 29230233
DOI: 10.3389/fpls.2017.02013

[…] (minimum contig = 100 bp, 23 k-mer, similarity fraction = 80% and length fraction = 50%)., protein-coding genes in the f. fujikuroi isolate “f250” masked genome were predicted using fgenesh 3.1.2 (molquest 2.2). inhouse developed pearl scripts were used to parse the fgenesh output and extract sequences. fgenesh was trained with fusarium graminearum that predicted a total of 14,302 protein […]

PMCID: 5723258
PMID: 29234695
DOI: 10.1016/j.dib.2017.11.066

[…] the protein coding genes the improved draft assembly was first repeat-masked using repeatmodler and repeatmasker software , followed by ab-initio gene prediction using the fgenesh module of the molquest v. 4.5 software package ( the predicted genes were annotated using blastx (e<10-6) search against the ncbi non-redundant (nr) protein database using blast2go […]

PMCID: 5643083
PMID: 29062693
DOI: 10.1016/j.gdata.2017.09.003

[…] cellular components. contigs with zero hits and no functional information were further carried for gene prediction each., unannotated contigs from blast2go were further loaded in fgenesh program of molquest software version 2.4.5 . molquest is a software package of various gene prediction programs. genes were predicted using reference genome of solanum lycopersicum and nicotiana tabacum. as, […]

PMCID: 5596092
PMID: 28943874
DOI: 10.3389/fmicb.2017.01730

[…] and demonstrated in a pie chart., searches for promoters in the m. huakuii 7653r genome were performed using promoter 2.0 ( and bprom ( predictions of rho-independent terminators were implemented with rnamotif 3.0.7 (, transtermhp 2.09 (, findterm […]

PMCID: 5432662
PMID: 28540183
DOI: 10.1016/j.gdata.2017.05.007

[…] merged using pandaseq v2.7 , and then assembled de novo using newbler v. 2.6 with default parameters (roeche inc. germany). we used the fgenesh gene prediction pipeline from the software package molquest v4.5 ( for the in silico prediction of genes. the predicted genes were annotated using blastx (e < 10− 6) search against the ncbi non-redundant (nr) protein […]

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