User profiles for Ron Zeira
 | Ron ZeiraVerily Verified email at verily.com Cited by 281 |
Alignment and integration of spatial transcriptomics data
Spatial transcriptomics (ST) measures mRNA expression across thousands of spots from a
tissue slice while recording the two-dimensional (2D) coordinates of each spot. We introduce …
tissue slice while recording the two-dimensional (2D) coordinates of each spot. We introduce …
Partial alignment of multislice spatially resolved transcriptomics data
Spatially resolved transcriptomics (SRT) technologies measure messenger RNA (mRNA)
expression at thousands of locations in a tissue slice. However, nearly all SRT technologies …
expression at thousands of locations in a tissue slice. However, nearly all SRT technologies …
STARCH: copy number and clone inference from spatial transcriptomics data
Tumors are highly heterogeneous, consisting of cell populations with both transcriptional
and genetic diversity. These diverse cell populations are spatially organized within a tumor, …
and genetic diversity. These diverse cell populations are spatially organized within a tumor, …
[HTML][HTML] Complexity and algorithms for copy-number evolution problems
Background Cancer is an evolutionary process characterized by the accumulation of somatic
mutations in a population of cells that form a tumor. One frequent type of mutations is copy …
mutations in a population of cells that form a tumor. One frequent type of mutations is copy …
Copy number evolution with weighted aberrations in cancer
R Zeira, BJ Raphael - Bioinformatics, 2020 - academic.oup.com
Motivation Copy number aberrations (CNAs), which delete or amplify large contiguous segments
of the genome, are a common type of somatic mutation in cancer. Copy number profiles…
of the genome, are a common type of somatic mutation in cancer. Copy number profiles…
Copy-number evolution problems: complexity and algorithms
Cancer is an evolutionary process characterized by the accumulation of somatic mutations
in a population of cells that form a tumor. One frequent type of mutations are copy number …
in a population of cells that form a tumor. One frequent type of mutations are copy number …
Sorting by cuts, joins, and whole chromosome duplications
Genome rearrangement problems have been extensively studied due to their importance in
biology. Most studied models assumed a single copy per gene. However, in reality, …
biology. Most studied models assumed a single copy per gene. However, in reality, …
Sorting cancer karyotypes using double-cut-and-joins, duplications and deletions
Motivation Problems of genome rearrangement are central in both evolution and cancer
research. Most genome rearrangement models assume that the genome contains a single copy …
research. Most genome rearrangement models assume that the genome contains a single copy …
Genome rearrangement problems with single and multiple gene copies: a review
Genome rearrangement problems arise in both species evolution and cancer research. Basic
genome rearrangement models assume that the genome contains a single copy of each …
genome rearrangement models assume that the genome contains a single copy of each …
A linear-time algorithm for the copy number transformation problem
Problems of genome rearrangement are central in both evolution and cancer. Most evolutionary
scenarios have been studied under the assumption that the genome contains a single …
scenarios have been studied under the assumption that the genome contains a single …