WebLogo: a sequence logo generator

Genome Research
Gavin E CrooksSteven E Brenner

Abstract

WebLogo generates sequence logos, graphical representations of the patterns within a multiple sequence alignment. Sequence logos provide a richer and more precise description of sequence similarity than consensus sequences and can rapidly reveal significant features of the alignment otherwise difficult to perceive. Each logo consists of stacks of letters, one stack for each position in the sequence. The overall height of each stack indicates the sequence conservation at that position (measured in bits), whereas the height of symbols within the stack reflects the relative frequency of the corresponding amino or nucleic acid at that position. WebLogo has been enhanced recently with additional features and options, to provide a convenient and highly configurable sequence logo generator. A command line interface and the complete, open WebLogo source code are available for local installation and customization.

References

Mar 1, 1976·Proceedings of the National Academy of Sciences of the United States of America·N C SeemanA Rich
Oct 25, 1990·Nucleic Acids Research·T D Schneider, R M Stephens
Jul 1, 1989·Trends in Biochemical Sciences·R G Brennan, B W Matthews
Apr 1, 1988·Proceedings of the National Academy of Sciences of the United States of America·W R Pearson, D J Lipman
Apr 5, 1986·Journal of Molecular Biology·T D SchneiderA Ehrenfeucht
May 11, 1982·Nucleic Acids Research·T D SchneiderL Gold
Oct 1, 1996·Nature Structural Biology·G ParkinsonR H Ebright
Apr 4, 1998·Journal of Theoretical Biology·T D Schneider
Feb 26, 1998·Computer Applications in the Biosciences : CABIOS·J GorodkinG D Stormo
Nov 6, 1998·Journal of Theoretical Biology·G D Stormo
Sep 15, 2001·FEMS Microbiology Letters·M Y GalperinE V Koonin
Dec 26, 2001·Nucleic Acids Research·Alex BatemanErik L L Sonnhammer
Aug 20, 2002·Proceedings of the National Academy of Sciences of the United States of America·Peter S NelsonBiaoyang Lin
Apr 16, 2003·FEMS Microbiology Letters·Daniel J RigdenMichael Y Galperin

❮ Previous
Next ❯

Citations

Jun 18, 2011·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·Anh-Tung PhamKristin D Bilyeu
Apr 8, 2009·Archives of Microbiology·Jayavel SridharZiauddin Ahamed Rafi
May 12, 2011·Archives of Microbiology·Shamlan M S Reshamwala, Santosh B Noronha
Feb 11, 2010·The Journal of Membrane Biology·Cene GostincarNina Gunde-Cimerman
Dec 16, 2004·Journal of Molecular Evolution·Ying-Tsong ChenHwei-Ling Peng
Jun 7, 2006·Journal of Molecular Evolution·Jérôme FlakowskiJan Pawlowski
Nov 20, 2008·Journal of Molecular Evolution·Aurélie Hua-Van, Pierre Capy
Jun 6, 2009·Journal of Molecular Evolution·Kabir Hassan BiswasSandhya S Visweswariah
Jul 30, 2009·Journal of Molecular Evolution·Zuzana SwigonováJerry Vockley
Mar 30, 2010·Journal of Molecular Evolution·Ilenia BoriaPeter F Stadler
Oct 20, 2011·Journal of Molecular Evolution·Nancy Y VillaThomas J Lyons
May 9, 2009·European Biophysics Journal : EBJ·Daniel Balleza, Froylan Gómez-Lagunas
Jan 18, 2005·Immunogenetics·Paula P CardenasManuel A Patarroyo
Dec 20, 2007·Immunogenetics·Francisco Ramírez-GómezJosé E García-Arrarás
Feb 27, 2010·Applied Microbiology and Biotechnology·Rachel HallerRobert Rutherford
Jan 19, 2011·Applied Microbiology and Biotechnology·Nicolas SeghezziMarie-Joëlle Virolle
Jul 28, 2011·Applied Microbiology and Biotechnology·Zahra Salehi-NajafabadiJuan F Martín
Oct 14, 2011·Applied Microbiology and Biotechnology·Hernán CostaSusana Alicia Ferrarotti
Jan 14, 2011·Current Microbiology·Reinaldo Fraga VidalPierre Monsan
Mar 26, 2013·Plant Cell Reports·Mikhail Yu SteklovGeorgy A Romanov
Jan 12, 2007·Planta·Zhongwei LinChuanqing Sun
Feb 8, 2006·Molecular Genetics and Genomics : MGG·Weidong BaoZhukuan Cheng
Jun 26, 2007·Molecular Genetics and Genomics : MGG·Santy Peraza-EcheverriaEduardo Castillo-Castro
Aug 8, 2007·Molecular Genetics and Genomics : MGG·Suman K DasNandula Raghuram
Jul 14, 2011·Molecular Genetics and Genomics : MGG·Colleen E DoyleBarry J Saville
Oct 31, 2012·Molecular Genetics and Genomics : MGG·Xiaohui WuYong Zeng

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.