-
--Brian has implemented scripts to compute GRNs, score each cell for the activity of GRNs, created tSNE visualizations of these networks with Scanpy, which look very good, and calculated enrichment of…
-
Dear all,
Thank you for developing LINGER.
I am trying LINGER with different metacells inputs and I could successfully infer different cell population gene regulatory networks for each of them.
…
-
when I try the Gene Regulatory Networks tutorial , the first step "results.ctl=compute.network(expr.data = expr.ctl,gene.names = gene.names)" reported an error:
Error: 'rowSort' is not an exported ob…
-
Thank you for providing such high-quality resources. As referenced in the supplementary data of the article, I am seeking a more detailed methodology for constructing GRNs (e.g., metacell, GRN evaluat…
-
### Task motivation
Gene Regulatory Network (GRN) inference is pivotal in systems biology, offering profound insights into the complex mechanisms that govern gene expression and cellular behavior. Th…
-
>The rapid progress of gene expression profiling has facilitated the prosperity of recent biological studies in various fields, where gene expression data characterizes various cell conditions and reg…
-
As in, e.g.
> Rämö P, Kesseli J, Yli-Harja O. Perturbation avalanches and criticality in gene regulatory networks. J Theor Biol. 2006;242: 164–170. doi:[10.1016/j.jtbi.2006.02.011](https://doi.org/…
-
**Background**
* [SBML](https://synonym.caltech.edu) and [CellML](https://www.cellml.org) are now widely adopted for defining and sharing models of subcellular biological processes.
* @MauriceHendri…
-
Hi,
I found the list missed some recent papers:
>[Multimodal Integration] [2022 Nature Biotechnology] Multi-omics single-cell data integration and regulatory inference with graph-linked embedding
…
-
Hello! I'm really excited about your algorithm and am trying it out in the context of gene regulatory networks. I noticed that, with my networks as least, the program just freezes once k reaches a cer…