Simpler and faster development of tumor phylogeny pipelines
In the recent years, there has been an increasing amount of single-cell sequencing studies,
producing a considerable number of new data sets. This has particularly affected the field of …
producing a considerable number of new data sets. This has particularly affected the field of …
[HTML][HTML] Reference-free inference of tumor phylogenies from single-cell sequencing data
A Subramanian, R Schwartz - BMC genomics, 2015 - Springer
Background Effective management and treatment of cancer continues to be complicated by
the rapid evolution and resulting heterogeneity of tumors. Phylogenetic study of cell …
the rapid evolution and resulting heterogeneity of tumors. Phylogenetic study of cell …
Reconstructing tumor phylogenies from heterogeneous single-cell data
G Pennington, CA Smith, S Shackney… - … of Bioinformatics and …, 2007 - World Scientific
Studies of gene expression in cancerous tumors have revealed that tumors presenting
indistinguishable symptoms in the clinic can be substantially different entities at the …
indistinguishable symptoms in the clinic can be substantially different entities at the …
Effective clustering for single cell sequencing cancer data
Background. Single cell sequencing (SCS) technologies provide a level of resolution that
makes it indispensable for inferring from a sequenced tumor, evolutionary trees or …
makes it indispensable for inferring from a sequenced tumor, evolutionary trees or …
[HTML][HTML] Phylogenetic tree inference: a top-down approach to track tumor evolution
P Wu, L Hou, Y Zhang, L Zhang - Frontiers in genetics, 2020 - frontiersin.org
Recently, an increasing number of studies sequence multiple biopsies of primary tumors,
and even paired metastatic tumors to understand heterogeneity and the evolutionary …
and even paired metastatic tumors to understand heterogeneity and the evolutionary …
[HTML][HTML] GRMT: generative reconstruction of mutation tree from scratch using single-cell sequencing data
Z Yu, H Liu, F Du, X Tang - Frontiers in genetics, 2021 - frontiersin.org
Single-cell sequencing (SCS) now promises the landscape of genetic diversity at single cell
level, and is particularly useful to reconstruct the evolutionary history of tumor. There are …
level, and is particularly useful to reconstruct the evolutionary history of tumor. There are …
[HTML][HTML] SiFit: inferring tumor trees from single-cell sequencing data under finite-sites models
Single-cell sequencing enables the inference of tumor phylogenies that provide insights on
intra-tumor heterogeneity and evolutionary trajectories. Recently introduced methods …
intra-tumor heterogeneity and evolutionary trajectories. Recently introduced methods …
[HTML][HTML] Computing tumor trees from single cells
A Davis, NE Navin - Genome biology, 2016 - Springer
Computational methods have been developed to reconstruct evolutionary lineages from
tumors using single-cell genomic data. The resulting tumor trees have important applications …
tumors using single-cell genomic data. The resulting tumor trees have important applications …
[HTML][HTML] Cancer phylogenetic tree inference at scale from 1000s of single cell genomes
A new generation of scalable single cell whole genome sequencing (scWGS) methods
allows unprecedented high resolution measurement of the evolutionary dynamics of cancer …
allows unprecedented high resolution measurement of the evolutionary dynamics of cancer …
[HTML][HTML] SubClonal hierarchy inference from somatic mutations: automatic reconstruction of cancer evolutionary trees from multi-region next generation sequencing
Recent improvements in next-generation sequencing of tumor samples and the ability to
identify somatic mutations at low allelic fractions have opened the way for new approaches …
identify somatic mutations at low allelic fractions have opened the way for new approaches …