December 2019 PMID 31796060

Text-mining clinically relevant cancer biomarkers for curation into the CIViC database.

Jake Lever, Martin R Jones, Arpad M Danos, Kilannin Krysiak, Melika Bonakdar, Jasleen K Grewal, Luka Culibrk, Obi L Griffith, Malachi Griffith, Steven J M Jones

Mentions

24
Peak: 16 in Dec 2019
across 2 sources since Jan 2019

Extended reach

96,255
potential audience

Total likes

60

Video views

969

Mentions per month

Jan 2019 – May 2021

Where it's discussed

  • X / Twitter22 posts
  • YouTube2 videos

AI synopsis

What people are saying

The discussions highlight the groundbreaking nature of the text-mining tool, with phrases like 'fantastic,' 'brilliant,' and 'really fun,' reflecting enthusiasm and recognition of its innovative potential. Multiple comments mention collaborations and the large scale of the database, emphasizing its meaningful impact on cancer research and data curation efforts.

AgreementStrong agreement

All discussions highly support and endorse the relevance and importance of the article, emphasizing its contributions to the field.

InterestHigh interest

The discussions reveal a strong fascination with the technological and scientific aspects, indicating high curiosity and enthusiasm.

EngagementHigh engagement

Several posts reference personal involvement, collaborations, and the broader implications, demonstrating deep engagement.

ImpactHigh impact

The tone and content suggest that respondents view this research as significantly advancing cancer biomarker curation and precision medicine.

Abstract in brief

  • This article discusses the development of CIViCmine, a text mining tool designed to extract clinically relevant cancer biomarkers from scientific literature to support precision oncology and update the CIViC knowledgebase more efficiently.
  • The process involved annotating sentences with biomarker information, using supervised learning to build the database, which now contains over 87,000 biomarkers linked to genes, drugs, and cancer types from thousands of PubMed articles.
  • CIViCmine offers a publicly accessible resource that provides prioritized, curated biomarkers to aid researchers and clinicians, enhancing the coverage and usability of cancer knowledgebases in precision medicine.

Top posts

Most liked on X and Bluesky
Jake Lever
@jakelever0 · X

The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb to help comb the huge cancer research literature. Thanks to @obigriffith , @malachigriffith and all our wonderful collaborators. https://t.co/Mr8mCMQufc

Dec 3, 2019 · 34 likes · 9 shares · 601 followers View post →
Malachi Griffith
@malachigriffith · X

This one was really fun. Great to collaborate with @sjmjones and his brilliant former student @jakelever0 on CIViCmine. Text mining informed by CIViC curation principles and applied to the biomedical literature. https://t.co/EZXcJwOGxq

Dec 3, 2019 · 11 likes · 5 shares · 2,463 followers View post →
geo
@geovcnt · X

Text-mining clinically relevant cancer biomarkers for curation into the CIViC database https://t.co/YDl2TPuN1G

Jan 2, 2020 · 3 likes · 3 shares · 232 followers View post →
Ming "Tommy" Tang
@tangming2005 · X

RT @geovcnt: Text-mining clinically relevant cancer biomarkers for curation into the CIViC database https://t.co/YDl2TPuN1G

Jan 2, 2020 · 3 shares · 41,044 followers View post →
Genome Medicine
@GenomeMedicine · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 4, 2019 · 9 shares · 24,743 followers View post →
BF Francis Ouellette
@bffo · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 4, 2019 · 9 shares · 6,946 followers View post →

All mentions

Obi Griffith, PhD
@obigriffith · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Jan 13, 2020 · 9 shares · 2,162 followers View post →
aaaa
@ngsstudent · X

RT @geovcnt: Text-mining clinically relevant cancer biomarkers for curation into the CIViC database https://t.co/YDl2TPuN1G

Jan 2, 2020 · 3 shares · 563 followers View post →
Ming "Tommy" Tang
@tangming2005 · X

RT @geovcnt: Text-mining clinically relevant cancer biomarkers for curation into the CIViC database https://t.co/YDl2TPuN1G

Jan 2, 2020 · 3 shares · 41,044 followers View post →
Konstantinos Kyriakidis
@kokyriakidis · X

RT @geovcnt: Text-mining clinically relevant cancer biomarkers for curation into the CIViC database https://t.co/YDl2TPuN1G

Jan 2, 2020 · 3 shares · 410 followers View post →
geo
@geovcnt · X

Text-mining clinically relevant cancer biomarkers for curation into the CIViC database https://t.co/YDl2TPuN1G

Jan 2, 2020 · 3 likes · 3 shares · 232 followers View post →
Biotexcel
@Biotexcel · X

Text-mining clinically relevant cancer biomarkers for curation into the CIViC database - https://t.co/A3ADqkZG3H

Dec 31, 2019 · 1,651 followers View post →
Int Soc Biocuration
@biocurator · X

#biocuration https://t.co/qzbn6PuStC Text-mining clinically relevant cancer biomarkers for curation into the CIViC database.

Dec 5, 2019 · 1,187 followers View post →
Nick Spies
@NickSpies13 · X

RT @malachigriffith: This one was really fun. Great to collaborate with @sjmjones and his brilliant former student @jakelever0 on CIViCmine…

Dec 4, 2019 · 5 shares · 485 followers View post →
Jake Lever
@jakelever0 · X

RT @malachigriffith: This one was really fun. Great to collaborate with @sjmjones and his brilliant former student @jakelever0 on CIViCmine…

Dec 4, 2019 · 5 shares · 601 followers View post →
Canada’s Michael Smith Genome Sciences Centre
@GSCofBC · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 4, 2019 · 9 shares · 1,556 followers View post →
BF Francis Ouellette
@bffo · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 4, 2019 · 9 shares · 6,946 followers View post →
Mark Borris Aldonza (@precursorcell.bsky.social
@PrecursorCell · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 4, 2019 · 9 shares · 1,385 followers View post →
Genome Medicine
@GenomeMedicine · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 4, 2019 · 9 shares · 24,743 followers View post →
Alice Rathjen
@dnatimes · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 3, 2019 · 9 shares · 5,351 followers View post →
Baifeng Zhang, PhD
@BaifengZhang · X

RT @malachigriffith: This one was really fun. Great to collaborate with @sjmjones and his brilliant former student @jakelever0 on CIViCmine…

Dec 3, 2019 · 5 shares · 107 followers View post →
Alex H. Wagner
@HandlerWagner · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 3, 2019 · 9 shares · 475 followers View post →
CIViCdb
@CIViCdb · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 3, 2019 · 9 shares · 330 followers View post →
Malachi Griffith
@malachigriffith · X

RT @jakelever0: The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb t…

Dec 3, 2019 · 9 shares · 2,463 followers View post →
Jake Lever
@jakelever0 · X

The final chapter of my thesis is now published in @GenomeMedicine . Check it out! Text mining for the fantastic @CIViCdb to help comb the huge cancer research literature. Thanks to @obigriffith , @malachigriffith and all our wonderful collaborators. https://t.co/Mr8mCMQufc

Dec 3, 2019 · 34 likes · 9 shares · 601 followers View post →
Jorge “Coco” Del-Aguila
@Coco_Lucho2 · X

RT @malachigriffith: This one was really fun. Great to collaborate with @sjmjones and his brilliant former student @jakelever0 on CIViCmine…

Dec 3, 2019 · 5 shares · 117 followers View post →
Malachi Griffith
@malachigriffith · X

This one was really fun. Great to collaborate with @sjmjones and his brilliant former student @jakelever0 on CIViCmine. Text mining informed by CIViC curation principles and applied to the biomedical literature. https://t.co/EZXcJwOGxq

Dec 3, 2019 · 11 likes · 5 shares · 2,463 followers View post →
Aurélie Gabriel
@gabriel_aurelie · X

RT @biorxivpreprint: Text-mining clinically relevant cancer biomarkers for curation into the CIViC database https://t.co/HX3WUcdNhg #bioRx…

Jan 11, 2019 · 3 shares · 154 followers View post →