295 citations · 1k across the 7 of their papers we have counts for
7 papers
cellanneal: A User-Friendly Deconvolution Software for Omics Data
Lisa Buchauer, Shalev Itzkovitz
We introduce cellanneal, a python-based software for deconvolving bulk RNA sequencing data. cellanneal relies on the optimization of Spearman's rank correlation coefficient between…
Coding limits on the number of transcription factors
Shalev Itzkovitz, Tsvi Tlusty, Uri Alon
Transcription factor proteins bind specific DNA sequences to control the expression of genes. They contain DNA binding domains which belong to several super-families, each with a s…
Subgraphs and network motifs in geometric networks
Shalev Itzkovitz, Uri Alon
Many real-world networks describe systems in which interactions decay with the distance between nodes. Examples include systems constrained in real space such as transportation and…
Coarse-Graining and Self-Dissimilarity of Complex Networks
Shalev Itzkovitz, Reuven Levitt, Nadav Kashtan +3
Can complex engineered and biological networks be coarse-grained into smaller and more understandable versions in which each node represents an entire pattern in the original netwo…
Topological Generalizations of network motifs
N. Kashtan, S. Itzkovitz, R. Milo +1
Biological and technological networks contain patterns, termed network motifs, which occur far more often than in randomized networks. Network motifs were suggested to be elementar…
On the uniform generation of random graphs with prescribed degree sequences
R. Milo, N. Kashtan, S. Itzkovitz +2
Random graphs with prescribed degree sequences have been widely used as a model of complex networks. Comparing an observed network to an ensemble of such graphs allows one to detec…