A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis
Megan Shand et al. present Lineage derived Somatic Truth (LinST), a validated data set of somatic mutations from a colon cancer cell line with a known lineage tree structure. They show that LinST can be used to benchmark true-positive and false-positive rates in somatic variant-calling pipelines app...
Guardado en:
| Autores principales: | , , , , , , , , |
|---|---|
| Formato: | article |
| Lenguaje: | EN |
| Publicado: |
Nature Portfolio
2020
|
| Materias: | |
| Acceso en línea: | https://doaj.org/article/ac5e932b4eb24213a2667a14bb688207 |
| Etiquetas: |
Agregar Etiqueta
Sin Etiquetas, Sea el primero en etiquetar este registro!
|
| id |
oai:doaj.org-article:ac5e932b4eb24213a2667a14bb688207 |
|---|---|
| record_format |
dspace |
| spelling |
oai:doaj.org-article:ac5e932b4eb24213a2667a14bb6882072021-12-02T12:33:13ZA validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis10.1038/s42003-020-01460-92399-3642https://doaj.org/article/ac5e932b4eb24213a2667a14bb6882072020-12-01T00:00:00Zhttps://doi.org/10.1038/s42003-020-01460-9https://doaj.org/toc/2399-3642Megan Shand et al. present Lineage derived Somatic Truth (LinST), a validated data set of somatic mutations from a colon cancer cell line with a known lineage tree structure. They show that LinST can be used to benchmark true-positive and false-positive rates in somatic variant-calling pipelines applied to cancer genomic data.Megan ShandJose SotoLee LichtensteinDavid BenjaminYossi FarjounYehuda BrodyYosef MaruvkaPaul C. BlaineyEric BanksNature PortfolioarticleBiology (General)QH301-705.5ENCommunications Biology, Vol 3, Iss 1, Pp 1-8 (2020) |
| institution |
DOAJ |
| collection |
DOAJ |
| language |
EN |
| topic |
Biology (General) QH301-705.5 |
| spellingShingle |
Biology (General) QH301-705.5 Megan Shand Jose Soto Lee Lichtenstein David Benjamin Yossi Farjoun Yehuda Brody Yosef Maruvka Paul C. Blainey Eric Banks A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis |
| description |
Megan Shand et al. present Lineage derived Somatic Truth (LinST), a validated data set of somatic mutations from a colon cancer cell line with a known lineage tree structure. They show that LinST can be used to benchmark true-positive and false-positive rates in somatic variant-calling pipelines applied to cancer genomic data. |
| format |
article |
| author |
Megan Shand Jose Soto Lee Lichtenstein David Benjamin Yossi Farjoun Yehuda Brody Yosef Maruvka Paul C. Blainey Eric Banks |
| author_facet |
Megan Shand Jose Soto Lee Lichtenstein David Benjamin Yossi Farjoun Yehuda Brody Yosef Maruvka Paul C. Blainey Eric Banks |
| author_sort |
Megan Shand |
| title |
A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis |
| title_short |
A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis |
| title_full |
A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis |
| title_fullStr |
A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis |
| title_full_unstemmed |
A validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis |
| title_sort |
validated lineage-derived somatic truth data set enables benchmarking in cancer genome analysis |
| publisher |
Nature Portfolio |
| publishDate |
2020 |
| url |
https://doaj.org/article/ac5e932b4eb24213a2667a14bb688207 |
| work_keys_str_mv |
AT meganshand avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT josesoto avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT leelichtenstein avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT davidbenjamin avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT yossifarjoun avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT yehudabrody avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT yosefmaruvka avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT paulcblainey avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT ericbanks avalidatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT meganshand validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT josesoto validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT leelichtenstein validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT davidbenjamin validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT yossifarjoun validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT yehudabrody validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT yosefmaruvka validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT paulcblainey validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis AT ericbanks validatedlineagederivedsomatictruthdatasetenablesbenchmarkingincancergenomeanalysis |
| _version_ |
1718393878690660352 |