Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species

Emma Hobbs; Tracey Gloster; Sean Chapman; Leighton Pritchard

doi:10.6084/m9.figshare.14370836.v1

Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species

Emma Hobbs
, Tracey Gloster
, Sean Chapman
, Leighton Pritchard

Strathclyde Institute Of Pharmacy And Biomedical Sciences

Research output: Contribution to conference › Poster

96 Downloads (Pure)

Abstract

Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition,
signalling, structure and energy metabolism. CAZy is the most comprehensive
CAZyme database, cataloguing CAZymes into sequence-based CAZy families.
The CAZyme prediction tools dbCAN [2], CUPP and eCAMI annotate
CAZymes with CAZy families. However, these tools have not been independently
evaluated on a common high-quality dataset. Additionally, previous evaluations
did not evaluate the binary classification of CAZymes/non-CAZymes, and the
multilabel classification of CAZymes to multiple CAZy families.

Original language	English
DOIs	https://doi.org/10.6084/m9.figshare.14370836.v1
Publication status	Published - 4 Apr 2021
Event	Microbiology Society Annual Conference 2021 - Online Duration: 26 Apr 2021 → 30 Apr 2021 https://microbiologysociety.org/event/annual-conference/annual-conference-online-2021.html

Conference

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

Keywords

pyrewton
dbCAN
CUPP
eCAMI
CAZymes detection
CAZymes
CAZy

Access to Document

10.6084/m9.figshare.14370836.v1Licence: CC BY 4.0

Hobbs-etal-MSAC-2021-Comprehensive-evaluation-of-CAZyme-prediction-tools-in-fungal-and-bacterial-speciesOther version, 1,000 KBLicence: CC BY 4.0

1 Poster
1 Article
1 Working Paper/Preprint
1 Working paper

Carbohydrate active enzymes in Pectobacteriaceae: coevolving enzyme sets and host adaptation
Hobbs, E. E. M., Gloster, T. M. & Pritchard, L., 12 May 2026, 18 p.
Research output: Working paper/Preprint/Pre-registration › Working Paper/Preprint

Open Access
File
2 Downloads (Pure)
cazy_webscraper: local compilation and interrogation of comprehensive CAZyme datasets
Hobbs, E. E. M., Gloster, T. M. & Pritchard, L., 14 Aug 2023, In: Microbial Genomics. 9, 8, 23 p., 001086.
Research output: Contribution to journal › Article › peer-review

Open Access
File
8 Link opens in a new tab Citations (Scopus)

18 Downloads (Pure)
cazy_webscraper: local compilation and interrogation of comprehensive CAZyme datasets
Hobbs, E. E. M., Gloster, T. M. & Pritchard, L., 3 Dec 2022, (Submitted) Long Island, New York, NY, USA, 19 p.
Research output: Working paper/Preprint/Pre-registration › Working paper

File
152 Downloads (Pure)

1 Education Outreach

PhD Supervision
Gloster, T. (Advisor), Pritchard, L. (Advisor), Chapman, S. (Advisor) & Hobbs, E. (Recipient)
1 Sept 2019 → 1 Sept 2023
Activity: Public Engagement and Outreach › Education Outreach

Cite this

@conference{289c131862ec41549c996237b1474788,

title = "Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species",

abstract = "Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition, signalling, structure and energy metabolism. CAZy is the most comprehensive CAZyme database, cataloguing CAZymes into sequence-based CAZy families. The CAZyme prediction tools dbCAN [2], CUPP and eCAMI annotate CAZymes with CAZy families. However, these tools have not been independently evaluated on a common high-quality dataset. Additionally, previous evaluations did not evaluate the binary classification of CAZymes/non-CAZymes, and the multilabel classification of CAZymes to multiple CAZy families.",

keywords = "pyrewton, dbCAN, CUPP, eCAMI, CAZymes detection, CAZymes, CAZy",

author = "Emma Hobbs and Tracey Gloster and Sean Chapman and Leighton Pritchard",

year = "2021",

month = apr,

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doi = "10.6084/m9.figshare.14370836.v1",

language = "English",

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

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}

TY - CONF

T1 - Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species

AU - Hobbs, Emma

AU - Gloster, Tracey

AU - Chapman, Sean

AU - Pritchard, Leighton

PY - 2021/4/4

Y1 - 2021/4/4

N2 - Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition, signalling, structure and energy metabolism. CAZy is the most comprehensive CAZyme database, cataloguing CAZymes into sequence-based CAZy families. The CAZyme prediction tools dbCAN [2], CUPP and eCAMI annotate CAZymes with CAZy families. However, these tools have not been independently evaluated on a common high-quality dataset. Additionally, previous evaluations did not evaluate the binary classification of CAZymes/non-CAZymes, and the multilabel classification of CAZymes to multiple CAZy families.

AB - Carbohydrate Active enZymes (CAZymes) are pivotal in pathogen recognition, signalling, structure and energy metabolism. CAZy is the most comprehensive CAZyme database, cataloguing CAZymes into sequence-based CAZy families. The CAZyme prediction tools dbCAN [2], CUPP and eCAMI annotate CAZymes with CAZy families. However, these tools have not been independently evaluated on a common high-quality dataset. Additionally, previous evaluations did not evaluate the binary classification of CAZymes/non-CAZymes, and the multilabel classification of CAZymes to multiple CAZy families.

KW - pyrewton

KW - dbCAN

KW - CUPP

KW - eCAMI

KW - CAZymes detection

KW - CAZymes

KW - CAZy

U2 - 10.6084/m9.figshare.14370836.v1

DO - 10.6084/m9.figshare.14370836.v1

M3 - Poster

T2 - Microbiology Society Annual Conference 2021

Y2 - 26 April 2021 through 30 April 2021

ER -

Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species

Abstract

Conference

Keywords

Access to Document

Fingerprint

Research output

Carbohydrate active enzymes in Pectobacteriaceae: coevolving enzyme sets and host adaptation

cazy_webscraper: local compilation and interrogation of comprehensive CAZyme datasets

cazy_webscraper: local compilation and interrogation of comprehensive CAZyme datasets

Activities

PhD Supervision

Cite this