Tag: PseKNC

iRO-3wPseKNC / iRO-PsekGCC- Identify DNA Replication Origins

iRO-3wPseKNC / iRO-PsekGCC

:: DESCRIPTION

iRO-3wPseKNC is a webserver of identify DNA replication origins by three-window-based PseKNC

iRO-PsekGCC is a web server to identify DNA replication origins based on Pseudo k-tuple GC Composition

::DEVELOPER

Liu Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Liu B, Weng F, Huang DS, Chou KC.
iRO-3wPseKNC: identify DNA replication origins by three-window-based PseKNC.
Bioinformatics. 2018 Sep 15;34(18):3086-3093. doi: 10.1093/bioinformatics/bty312. PMID: 29684124.

Liu B, Chen S, Yan K, Weng F.
iRO-PsekGCC: Identify DNA Replication Origins Based on Pseudo k-Tuple GC Composition.
Front Genet. 2019 Sep 18;10:842. doi: 10.3389/fgene.2019.00842. PMID: 31620165; PMCID: PMC6759546.

iPromoter-2L 2.0 – Identifying Promoters and their types by multi-window-based PseKNC

iPromoter-2L 2.0

:: DESCRIPTION

iPromoter-2L is a predictor for identifying promoters and their types by combining Smoothing Cutting Window algorithm and sequence-based features

::DEVELOPER

Liu Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Liu B, Li K.
iPromoter-2L2.0: Identifying Promoters and Their Types by Combining Smoothing Cutting Window Algorithm and Sequence-Based Features.
Mol Ther Nucleic Acids. 2019 Dec 6;18:80-87. doi: 10.1016/j.omtn.2019.08.008. Epub 2019 Aug 14. PMID: 31536883; PMCID: PMC6796744.

Liu B, Yang F, Huang DS, Chou KC.
iPromoter-2L: a two-layer predictor for identifying promoters and their types by multi-window-based PseKNC.
Bioinformatics. 2018 Jan 1;34(1):33-40. doi: 10.1093/bioinformatics/btx579. PMID: 28968797.

PseKNC – Generating Pseudo K-tuple Nucleotide Composition

PseKNC

:: DESCRIPTION

The PseKNC (pseudo oligonucleotide composition, or pseudo K-tuple nucleotide composition), can be used to represent a DNA or RNA sequence with a discrete model or vector yet still keep considerable sequence order information, particularly the global or long-range sequence order information, via the physicochemical properties of its constituent oligonucleotides.

::DEVELOPER

LinDing Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Web Browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

PseKNC: A flexible web server for generating pseudo K-tuple nucleotide composition.
Chen W, Lei TY, Jin DC, Lin H, Chou KC.
Anal Biochem. 2014 Jul 1;456:53-60. doi: 10.1016/j.ab.2014.04.001.