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Citations per year

Number of citations per year for the bioinformatics software tool GENSCAN

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This map represents all the scientific publications referring to GENSCAN per scientific context
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GENSCAN specifications


Unique identifier OMICS_01494
Alternative name Genescan
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes


  • person_outline Chris Burge
  • person_outline Samuel Karlin

Publications for GENSCAN

GENSCAN citations


Systematic analysis of DEMETER like DNA glycosylase genes shows lineage specific Smi miR7972 involved in SmDML1 regulation in Salvia miltiorrhiza

Sci Rep
PMCID: 5940787
PMID: 29739980
DOI: 10.1038/s41598-018-25315-w

[…] search the two databases of S. miltiorrhiza whole genome sequence,. The searches were carried out using the tBLASTN program. An e-value cut off of 1e−10 was applied. Gene models were predicted on the GENSCAN web server ( for retrieved genomic DNA sequences. The predicted gene models were then manually examined and corrected by comparison with DML genes identified […]


De Novo DNA Synthesis in Aedes aegypti Midgut Cells as a Complementary Strategy to Limit Dengue Viral Replication

Front Microbiol
PMCID: 5932203
PMID: 29755433
DOI: 10.3389/fmicb.2018.00801

[…] igure .An exon prediction analysis was made using five different tools: Augustus (Keller et al., ), FGenesh (Salamov and Solovyev, ), GeneID (Blanco et al., ), GeneMark (Besemer and Borodovsky, ) and GenScan (Burge and Karlin, ). Hnt CDS and mRNA coding regions were deduced and oligonucleotide primers for hnt amplification were designed, sequences in Supplementary Tables , (Zanchi et al., ). […]


Chromosome scale assembly of the Monopterus genome

PMCID: 5946948
PMID: 29688346
DOI: 10.1093/gigascience/giy046

[…] , homologous genomic sequences were input into the Genewise program [] to align matching proteins. This procedure allowed us to define gene structures. For de novo prediction, both the Fgenesh [] and Genscan [] programs were used to predict coding genes with the appropriate parameters. Homology-based and de novo- derived gene sets were combined with comprehensive, nonredundant reference gene sets, […]


Draft genome of the Peruvian scallop Argopecten purpuratus

PMCID: 5905365
PMID: 29617765
DOI: 10.1093/gigascience/giy031

[…] ried out with four programs: Augustus_3.0.3 (Augustus: Gene Prediction, RRID:SCR_008417), the parameter set as “-uniqueGeneId true –noInFrameStop = true –gff3 on –genemodel complete –strand both” []; GENSCAN (GENSCAN, RRID:SCR_012902), with default parameter []; GlimmerHMM_3.0.2 (GlimmerHMM, RRID:SCR_002654), the parameter set as " -f -g" []; and SNAP (the default parameter) []. All evidences of t […]


Enhancing the catalytic activity of a novel GH5 cellulase GtCel5 from Gloeophyllum trabeum CBS 900.73 by site directed mutagenesis on loop 6

Biotechnol Biofuels
PMCID: 5863444
PMID: 29588661
DOI: 10.1186/s13068-018-1080-5

[…] o acid sequences were analyzed using the BLASTx and BLASTp programs (, respectively. The introns, exons, and transcription initiation sites were predicted using the GENSCAN Web Server ( SignalP 3.0 was used to predict the signal peptide sequence ( The potential N-glycosylation sites were […]


Draft genome of the protandrous Chinese black porgy, Acanthopagrus schlegelii

PMCID: 5893958
PMID: 29659813
DOI: 10.1093/gigascience/giy012

[…] b initio prediction, homologue prediction, and transcriptome-based prediction. The ab initio prediction was carried out with Augustus (Augustus: Gene Prediction, RRID:SCR_008417), version 2.5 [], and GENSCAN (GENSCAN, RRID:SCR_012902), version 1.0, [], on the repeat-masked assembly. For the homology-based gene prediction, homologous proteins of several reported fishes (zebrafish, Japanese puffer, […]

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GENSCAN institution(s)
Center for Cancer Research and Department of Biology, Massachusetts Institute of Technology, Cambridge, MA, USA; Department of Mathematics, Stanford University, Stanford, CA, USA
GENSCAN funding source(s)
Supported in part by National Institutes of Health Grants 5R01GM10452-33 and 5R01HG00335-10, and National Science Foundation grant DMS9403553-002.

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