https://github.com/hammerlab/awesome-clonality
A curated list of awesome clonality and tumor heterogeneity resources
https://github.com/hammerlab/awesome-clonality
List: awesome-clonality
Last synced: 3 months ago
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A curated list of awesome clonality and tumor heterogeneity resources
- Host: GitHub
- URL: https://github.com/hammerlab/awesome-clonality
- Owner: hammerlab
- License: apache-2.0
- Created: 2016-10-07T19:02:48.000Z (over 9 years ago)
- Default Branch: master
- Last Pushed: 2019-06-25T14:58:30.000Z (almost 7 years ago)
- Last Synced: 2025-11-03T21:04:04.557Z (7 months ago)
- Size: 7.81 KB
- Stars: 15
- Watchers: 14
- Forks: 6
- Open Issues: 1
-
Metadata Files:
- Readme: README.md
- Contributing: CONTRIBUTING.md
- License: LICENSE
- Code of conduct: CODE-OF-CONDUCT.md
Awesome Lists containing this project
README
# Awesome Clonality
A curated list of awesome resources on clonality and tumor heterogeneity.
 [](./LICENSE.md)
## Tools and their publications
* [ASCAT](http://www.pnas.org/content/107/39/16910%29n5/full/nbt.2203.html)
* [Canopy](http://www.pnas.org/content/113/37/E5528.full)
* [Clomial](http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003703#pcbi.1003703.e113)
* [cloneHD](http://www.sciencedirect.com/science/article/pii/S2211124714003738)
* [PhyloWGS](http://genomebiology.biomedcentral.com/articles/10.1186/s13059-015-0602-8)
* [PurityEst](http://bioinformatics.oxfordjournals.org/content/28/17/2265.long)
* [PyClone](http://www.nature.com/nmeth/journal/v11/n4/full/nmeth.2883.html)
* [qpure](http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0045835)
* [QuantumClone](http://www.biorxiv.org/content/early/2016/05/19/054346.abstract)
* [sciClone](http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003665)
* [SCITE](http://genomebiology.biomedcentral.com/articles/10.1186/s13059-016-0936-x)
* [THetA](http://genomebiology.biomedcentral.com/articles/10.1186/gb-2013-14-7-r80)
## Reviews
* [Biological and Therapeutic Impact of Intratumor Heterogeneity in Cancer Evolution](http://www.cell.com/cancer-cell/abstract/S1535-6108%2814%2900510-8)
* [Cancer therapy: an evolved approach](http://www.nature.com/news/cancer-therapy-an-evolved-approach-1.19746)
* [Visualizing Clonal Evolution in Cancer](http://www.cell.com/molecular-cell/fulltext/S1097-2765%2816%2930188-5)
* [Tumor heterogeneity: Causes and consequences](http://www.sciencedirect.com/science/article/pii/S0304419X09000742)
## Studies on clonality
* [Clonal neoantigens elicit T cell immunoreactivity and sensitivity to immune checkpoint blockade](http://science.sciencemag.org/content/early/2016/03/02/science.aaf1490)
* [Intratumor Heterogeneity and Branched Evolution Revealed by Multiregion Sequencing](http://www.nejm.org/doi/full/10.1056/NEJMoa1113205)
* [Systematic pan-cancer analysis of tumour purity](http://www.nature.com/articles/ncomms9971)
## Oldies but goldies
* [The clonal evolution of tumor cell populations](http://science.sciencemag.org/content/194/4260/23)
* [Tumor Heterogeneity](http://www.karmanos.org/upload/docs/News/Cancer%20Res-1984-Heppner-2259-65.pdf)
* [Tumor Heterogeneity and the Biology of Cancer Invasion and Metastasis](http://cancerres.aacrjournals.org/content/38/9/2651.short)
## Theory
* [Reference-free inference of tumor phylogenies from single-cell sequencing data](http://bmcgenomics.biomedcentral.com/articles/10.1186/1471-2164-16-S11-S7)
## Data sets
* [AML31 from UWash](http://aml31.genome.wustl.edu/)