September 2021 PMID 34504347

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing.

Li Tai Fang, Bin Zhu, Yongmei Zhao, Wanqiu Chen, Zhaowei Yang, Liz Kerrigan, Kurt Langenbach, Maryellen de Mars, Charles Lu, Kenneth Idler, Howard Jacob, Yuanting Zheng, Luyao Ren, Ying Yu, Erich Jaeger

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Mentions

43
Peak: 19 in Sep 2021
across 4 sources since Jun 2021

Extended reach

386,870
potential audience

Total likes

89

Video views

1,076

Mentions per month

Jun 2021 – Dec 2021

Where it's discussed

  • X / Twitter25 posts
  • News14 articles
  • YouTube2 videos
  • Blogs2 articles

AI synopsis

What people are saying

The discussions collectively demonstrate high enthusiasm and support for the publication's goal of improving benchmarking in cancer genomics, with posters emphasizing methods, collaborations, and future implications; language like 'big steps,' 'best practice,' and references to prestigious journals highlight the perceived significance and potential of this work.

AgreementStrong agreement

Most comments express strong support and approval for the importance of establishing standardized reference datasets, emphasizing consensus on its significance.

InterestHigh interest

Discussions reveal high interest, with multiple posts highlighting the practical applications and advancements in cancer genomics research.

EngagementHigh engagement

Posts delve into technical details, praising methods like the SomaticSeq App and referencing influential studies, indicating deep engagement.

ImpactHigh impact

The coverage reflects recognition of the publication's potential to standardize practices and improve cancer mutation detection, showcasing a high perceived impact.

Abstract in brief

  • The study highlights the need for standardized DNA datasets in cancer genomics to improve sequencing pipelines and algorithm performance.
  • The authors present reference call sets derived from paired tumor-normal genomic DNA samples from a breast cancer cell line, known for its genetic diversity and alterations.
  • These reference samples allow for better bias minimization in sequencing technologies and serve as a valuable resource for benchmarking tumor analysis methods, despite not being representative of primary clinical cancer cells.

Top posts

Most liked on X and Bluesky
Nature Biotechnology
@NatureBiotech · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/HvmuSxq1t0 https://t.co/t6kEWmDXPD

Sep 9, 2021 · 33 likes · 8 shares · 318,643 followers View post →
Nicolas Robine
@notSoJunkDNA · X

Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/ZS8GD66kXG

Sep 9, 2021 · 23 likes · 6 shares · 11,510 followers View post →
Marián Hajdúch
@marian_hajduch · X

Big steps towards practical use of WGS&WES in personalization of cancer therapy. Congrats to my colleagues form @IMTM_Olomouc, @EatrisEric, @FIMM_UH, @karolinskainst, etc. contributing to two papers in @NatureBiotech in one issue.

Sep 11, 2021 · 11 likes · 6,036 followers View post →
Institute of Molecular and Translational Medicine
@IMTM_Olomouc · X

Fang LT, et al.: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole genome sequencing. Nat Biotechnol. https://t.co/9IsTpMyyko

Sep 11, 2021 · 3 likes · 645 followers View post →
Steve, PhD
@StevOmics · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/ldLwtAAhLv #science #genomics

Nov 7, 2021 · 2 likes · 271 followers View post →
Javier Santoyo
@jsantoyo · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing. #SEQC2 #WGS #BenchmarkingDataSets #MutationDetection https://t.co/RY9wXXqGJj @NatureBiotech

Sep 9, 2021 · 1 like · 6,132 followers View post →

All mentions

Li Tai Fang
@ltfang · X

Video presentation on the bioinformatic methods to establish high-confidence somatic mutation reference call sets for #SEQC2 cancer reference samples and data sets https://t.co/Xxs4kTEmJm

Dec 20, 2021 · 282 followers View post →
Li Tai Fang
@ltfang · X

Video demo of using the SomaticSeq App on precisionFDA to train and predict somatic mutations in paired tumor-normal sequencing data: https://t.co/JjmZXAOnnM

Dec 20, 2021 · 282 followers View post →
Zheng Ming Fang
@zmfang · X

RT @ltfang: WGS and WES cancer reference datasets from multi-center cross-platform benchmark study: https://t.co/kva4Glf56X - Best practi…

Nov 21, 2021 · 1 share · 8 followers View post →
Li Tai Fang
@ltfang · X

WGS and WES cancer reference datasets from multi-center cross-platform benchmark study: https://t.co/kva4Glf56X - Best practice: https://t.co/JLnWGPVVhz (https://t.co/W5PZ0wJk0B) - High-confidence somatic mutation call set: https://t.co/RAqSp04IT1 (https://t.co/BOYki3Toxf)

Nov 9, 2021 · 1 like · 1 share · 281 followers View post →
Steve, PhD
@StevOmics · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/ldLwtAAhLv #science #genomics

Nov 7, 2021 · 2 likes · 271 followers View post →
ashish (@acgt01@genomic.social)
@acgt01 · X

RT @notSoJunkDNA: Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Es…

Oct 1, 2021 · 6 shares · 734 followers View post →
Steve, PhD
@StevOmics · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/ldLwtAAhLv #science #genomics

Sep 28, 2021 · 1 like · 271 followers View post →
Steve, PhD
@StevOmics · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/ldLwtAAhLv #science #genomics

Sep 26, 2021 · 1 like · 271 followers View post →
Zheng Ming Fang
@zmfang · X

RT @NatureBiotech: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-geno…

Sep 19, 2021 · 8 shares · 8 followers View post →
Marián Hajdúch
@marian_hajduch · X

Big steps towards practical use of WGS&WES in personalization of cancer therapy. Congrats to my colleagues form @IMTM_Olomouc, @EatrisEric, @FIMM_UH, @karolinskainst, etc. contributing to two papers in @NatureBiotech in one issue.

Sep 11, 2021 · 11 likes · 6,036 followers View post →
Institute of Molecular and Translational Medicine
@IMTM_Olomouc · X

Fang LT, et al.: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole genome sequencing. Nat Biotechnol. https://t.co/9IsTpMyyko

Sep 11, 2021 · 3 likes · 645 followers View post →
Michelle
@Michellisu_2018 · X

RT @NatureBiotech: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-geno…

Sep 10, 2021 · 8 shares · 125 followers View post →
Javier Santoyo
@jsantoyo · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing. #SEQC2 #WGS #BenchmarkingDataSets #MutationDetection https://t.co/RY9wXXqGJj @NatureBiotech

Sep 9, 2021 · 1 like · 6,132 followers View post →
aaaa
@ngsstudent · X

RT @notSoJunkDNA: Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Es…

Sep 9, 2021 · 6 shares · 563 followers View post →
Tina Han
@tingfordha · X

RT @notSoJunkDNA: Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Es…

Sep 9, 2021 · 6 shares · 1,165 followers View post →
Paz Polak
@PolakPaz · X

RT @notSoJunkDNA: Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Es…

Sep 9, 2021 · 6 shares · 636 followers View post →
Chris Miller
@chrisamiller · X

RT @notSoJunkDNA: Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Es…

Sep 9, 2021 · 6 shares · 1,166 followers View post →
Journal of Comparative Pathology
@JournalCompPath · X

RT @NatureBiotech: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-geno…

Sep 9, 2021 · 8 shares · 322 followers View post →
Absurd
@qualityisarul3 · X

RT @NatureBiotech: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-geno…

Sep 9, 2021 · 8 shares · 280 followers View post →
Anirban Maitra
@Aiims1742 · X

RT @notSoJunkDNA: Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Es…

Sep 9, 2021 · 6 shares · 31,285 followers View post →
Nicolas Robine
@notSoJunkDNA · X

Toward best practice in cancer mutation detection with whole-genome and whole-exome sequencing https://t.co/j79FvpFB4q Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/ZS8GD66kXG

Sep 9, 2021 · 23 likes · 6 shares · 11,510 followers View post →
Skatiq
@Skatiq3 · X

RT @NatureBiotech: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-geno…

Sep 9, 2021 · 8 shares · 272 followers View post →
Lum Lab
@lum_lab · X

RT @NatureBiotech: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-geno…

Sep 9, 2021 · 8 shares · 1,208 followers View post →
syawal™ シ
@syawal · X

RT @NatureBiotech: Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-geno…

Sep 9, 2021 · 8 shares · 3,183 followers View post →
Nature Biotechnology
@NatureBiotech · X

Establishing community reference samples, data and call sets for benchmarking cancer mutation detection using whole-genome sequencing https://t.co/HvmuSxq1t0 https://t.co/t6kEWmDXPD

Sep 9, 2021 · 33 likes · 8 shares · 318,643 followers View post →