cazy_webscraper: for creating a local CAZy database

Emma Elizabeth Mary Hobbs; Leighton Pritchard; Sean Chapman; Tracey Gloster

cazy_webscraper: for creating a local CAZy database

Emma Elizabeth Mary Hobbs, Leighton Pritchard, Sean Chapman, Tracey Gloster

Research output: Contribution to conference › Poster

Abstract

Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition, signalling, structure and energy metabolism. CAZy (www.cazy.org) is the most comprehensive CAZyme database, but it does not provide methods for automating data retrieval or submitting sequences for annotation.

cazy_webscraper retrieves user-specified datasets from CAZy, producing a local SQL database enabling thorough interrogation of the data. cazy_webscraper can also retrieve protein sequences from GenBank and download structure files from RCSB PDB.

Original language	English
Publication status	Published - 26 Apr 2021
Event	Microbiology Society Annual Conference 2021 - Virtual, Online Duration: 26 Apr 2021 → 30 Apr 2021 https://microbiologysociety.org/event/full-events-listing/annual-conference-online-2021.html

Conference

Conference	Microbiology Society Annual Conference 2021
City	Online
Period	26/04/21 → 30/04/21
Internet address	https://microbiologysociety.org/event/full-events-listing/annual-conference-online-2021.html

Keywords

CAZy
CAZymes
Webscraper

Access to Document

P362_cazy_webscraper_EH
Copyright © 2021 The Authors.
Final published version, 1.01 MBLicence: CC BY

Handle.net

Persistent link

Cite this

@conference{fae0ac5541254534a2d71a1122292e00,

title = "cazy\_webscraper: for creating a local CAZy database",

abstract = "Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition, signalling, structure and energy metabolism. CAZy (www.cazy.org) is the most comprehensive CAZyme database, but it does not provide methods for automating data retrieval or submitting sequences for annotation. cazy\_webscraper retrieves user-specified datasets from CAZy, producing a local SQL database enabling thorough interrogation of the data. cazy\_webscraper can also retrieve protein sequences from GenBank and download structure files from RCSB PDB.",

keywords = "CAZy, CAZymes, Webscraper",

author = "Hobbs, \{Emma Elizabeth Mary\} and Leighton Pritchard and Sean Chapman and Tracey Gloster",

year = "2021",

month = apr,

day = "26",

language = "English",

note = "Microbiology Society Annual Conference 2021 ; Conference date: 26-04-2021 Through 30-04-2021",

url = "https://microbiologysociety.org/event/full-events-listing/annual-conference-online-2021.html",

}

TY - CONF

T1 - cazy_webscraper

T2 - Microbiology Society Annual Conference 2021

AU - Hobbs, Emma Elizabeth Mary

AU - Pritchard, Leighton

AU - Chapman, Sean

AU - Gloster, Tracey

PY - 2021/4/26

Y1 - 2021/4/26

N2 - Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition, signalling, structure and energy metabolism. CAZy (www.cazy.org) is the most comprehensive CAZyme database, but it does not provide methods for automating data retrieval or submitting sequences for annotation. cazy_webscraper retrieves user-specified datasets from CAZy, producing a local SQL database enabling thorough interrogation of the data. cazy_webscraper can also retrieve protein sequences from GenBank and download structure files from RCSB PDB.

AB - Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition, signalling, structure and energy metabolism. CAZy (www.cazy.org) is the most comprehensive CAZyme database, but it does not provide methods for automating data retrieval or submitting sequences for annotation. cazy_webscraper retrieves user-specified datasets from CAZy, producing a local SQL database enabling thorough interrogation of the data. cazy_webscraper can also retrieve protein sequences from GenBank and download structure files from RCSB PDB.

KW - CAZy

KW - CAZymes

KW - Webscraper

UR - https://doi.org/10.6084/m9.figshare.14370860.v7

UR - https://doi.org/10.6084/m9.figshare.14370869.v3

M3 - Poster

Y2 - 26 April 2021 through 30 April 2021

ER -

cazy_webscraper: for creating a local CAZy database

Abstract

Conference

Keywords

Access to Document

Handle.net

Other files and links

Fingerprint

HobnobMancer/PhD_Project_Scripts: Testing Zenodo integration

HobnobMancer/cazy_webscraper: All versions

cazy_webscraper manuscript additional files

cazy_webscraper: local compilation and interrogation of comprehensive CAZyme datasets

Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species

Cite this

cazy_webscraper: for creating a local CAZy database

Abstract

Conference

Keywords

Access to Document

Handle.net

Other files and links

Fingerprint

Datasets

HobnobMancer/PhD_Project_Scripts: Testing Zenodo integration

HobnobMancer/cazy_webscraper: All versions

cazy_webscraper manuscript additional files

Research output

cazy_webscraper: local compilation and interrogation of comprehensive CAZyme datasets

Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species

Cite this