Prototyping CRISP: A causal relation and inference search platform applied to colorectal cancer data

Samuel Budd; Arno Blaas; Adrienne Hoarfrost; Kia Khezeli; Krittika D’Silva; Frank Soboczenski; Graham Mackintosh; Nicholas Chia; John Kalantari

doi:10.1109/LifeTech52111.2021.9391819

Prototyping CRISP: A causal relation and inference search platform applied to colorectal cancer data

Samuel Budd
, Arno Blaas
, Adrienne Hoarfrost
, Kia Khezeli
, Krittika D’Silva
, Frank Soboczenski
, Graham Mackintosh
, Nicholas Chia
, John Kalantari

Population Health Sciences

Research output: Chapter in Book/Report/Conference proceeding › Conference paper › peer-review

6 Citations (Scopus)

Abstract

We introduce CRISP, a Causal Research and Inference Search Platform. It is designed to assist biological and medical research by applying a variety of causal discovery methods to heterogeneous and high-dimensional observational data. CRISP aims to identify a small set of input variables which are most likely to have a causal effect on a target variable. The output of CRISP, thus, highlights the most promising candidates for further targeted research. We illustrate the utility of CRISP with a case study in oncology, using a multi-omic colorectal cancer data set to identify causal drivers differentiating two subtypes of colorectal cancer.

Original language	English
Title of host publication	LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies
Publisher	Institute of Electrical and Electronics Engineers Inc.
Pages	517-521
Number of pages	5
ISBN (Electronic)	9781665418751
DOIs	https://doi.org/10.1109/LifeTech52111.2021.9391819
Publication status	Published - 9 Mar 2021
Event	3rd IEEE Global Conference on Life Sciences and Technologies, LifeTech 2021 - Nara, Japan Duration: 9 Mar 2021 → 11 Mar 2021

Publication series

Name	LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies

Conference

Conference	3rd IEEE Global Conference on Life Sciences and Technologies, LifeTech 2021
Country/Territory	Japan
City	Nara
Period	9/03/2021 → 11/03/2021

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

SDG 3 Good Health and Well-being

Keywords

Causal discovery
Causal inference
Colorectal cancer

Access to Document

10.1109/LifeTech52111.2021.9391819

Cite this

Budd, S., Blaas, A., Hoarfrost, A., Khezeli, K., D’Silva, K., Soboczenski, F., Mackintosh, G., Chia, N., & Kalantari, J. (2021). Prototyping CRISP: A causal relation and inference search platform applied to colorectal cancer data. In LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies (pp. 517-521). Article 9391819 (LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/LifeTech52111.2021.9391819

Budd, Samuel ; Blaas, Arno ; Hoarfrost, Adrienne et al. / Prototyping CRISP : A causal relation and inference search platform applied to colorectal cancer data. LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies. Institute of Electrical and Electronics Engineers Inc., 2021. pp. 517-521 (LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies).

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abstract = "We introduce CRISP, a Causal Research and Inference Search Platform. It is designed to assist biological and medical research by applying a variety of causal discovery methods to heterogeneous and high-dimensional observational data. CRISP aims to identify a small set of input variables which are most likely to have a causal effect on a target variable. The output of CRISP, thus, highlights the most promising candidates for further targeted research. We illustrate the utility of CRISP with a case study in oncology, using a multi-omic colorectal cancer data set to identify causal drivers differentiating two subtypes of colorectal cancer.",

keywords = "Causal discovery, Causal inference, Colorectal cancer",

author = "Samuel Budd and Arno Blaas and Adrienne Hoarfrost and Kia Khezeli and Krittika D{\textquoteright}Silva and Frank Soboczenski and Graham Mackintosh and Nicholas Chia and John Kalantari",

note = "Publisher Copyright: {\textcopyright} 2021 IEEE. Copyright: Copyright 2021 Elsevier B.V., All rights reserved.; 3rd IEEE Global Conference on Life Sciences and Technologies, LifeTech 2021 ; Conference date: 09-03-2021 Through 11-03-2021",

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doi = "10.1109/LifeTech52111.2021.9391819",

language = "English",

series = "LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies",

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Budd, S, Blaas, A, Hoarfrost, A, Khezeli, K, D’Silva, K, Soboczenski, F, Mackintosh, G, Chia, N & Kalantari, J 2021, Prototyping CRISP: A causal relation and inference search platform applied to colorectal cancer data. in LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies., 9391819, LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies, Institute of Electrical and Electronics Engineers Inc., pp. 517-521, 3rd IEEE Global Conference on Life Sciences and Technologies, LifeTech 2021, Nara, Japan, 9/03/2021. https://doi.org/10.1109/LifeTech52111.2021.9391819

Prototyping CRISP: A causal relation and inference search platform applied to colorectal cancer data. / Budd, Samuel; Blaas, Arno; Hoarfrost, Adrienne et al.
LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies. Institute of Electrical and Electronics Engineers Inc., 2021. p. 517-521 9391819 (LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies).

Research output: Chapter in Book/Report/Conference proceeding › Conference paper › peer-review

TY - CHAP

T1 - Prototyping CRISP

T2 - 3rd IEEE Global Conference on Life Sciences and Technologies, LifeTech 2021

AU - Budd, Samuel

AU - Blaas, Arno

AU - Hoarfrost, Adrienne

AU - Khezeli, Kia

AU - D’Silva, Krittika

AU - Soboczenski, Frank

AU - Mackintosh, Graham

AU - Chia, Nicholas

AU - Kalantari, John

PY - 2021/3/9

Y1 - 2021/3/9

N2 - We introduce CRISP, a Causal Research and Inference Search Platform. It is designed to assist biological and medical research by applying a variety of causal discovery methods to heterogeneous and high-dimensional observational data. CRISP aims to identify a small set of input variables which are most likely to have a causal effect on a target variable. The output of CRISP, thus, highlights the most promising candidates for further targeted research. We illustrate the utility of CRISP with a case study in oncology, using a multi-omic colorectal cancer data set to identify causal drivers differentiating two subtypes of colorectal cancer.

AB - We introduce CRISP, a Causal Research and Inference Search Platform. It is designed to assist biological and medical research by applying a variety of causal discovery methods to heterogeneous and high-dimensional observational data. CRISP aims to identify a small set of input variables which are most likely to have a causal effect on a target variable. The output of CRISP, thus, highlights the most promising candidates for further targeted research. We illustrate the utility of CRISP with a case study in oncology, using a multi-omic colorectal cancer data set to identify causal drivers differentiating two subtypes of colorectal cancer.

KW - Causal discovery

KW - Causal inference

KW - Colorectal cancer

UR - https://www.scopus.com/pages/publications/85104587968

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DO - 10.1109/LifeTech52111.2021.9391819

M3 - Conference paper

AN - SCOPUS:85104587968

T3 - LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies

SP - 517

EP - 521

BT - LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies

PB - Institute of Electrical and Electronics Engineers Inc.

Y2 - 9 March 2021 through 11 March 2021

ER -

Budd S, Blaas A, Hoarfrost A, Khezeli K, D’Silva K, Soboczenski F et al. Prototyping CRISP: A causal relation and inference search platform applied to colorectal cancer data. In LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies. Institute of Electrical and Electronics Engineers Inc. 2021. p. 517-521. 9391819. (LifeTech 2021 - 2021 IEEE 3rd Global Conference on Life Sciences and Technologies). doi: 10.1109/LifeTech52111.2021.9391819

Prototyping CRISP: A causal relation and inference search platform applied to colorectal cancer data

Abstract

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UN SDGs

Keywords

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