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Dear,
Thank you for developed the scMEGA.I would like to ask you about the GRN inferred from the naïve CD4 T cells to memory CD4 T cells trajectory in the "Gene-regulatory network of CD4 T cells acti…
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### 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…
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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.
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**Background**
The script addon.py already have functions for preprocessing, normalization, clustering, cell type prediction, gene list for cells/tissues, gene expression per cell types, DEG per tiss…
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--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…
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Paper: https://www.nature.com/articles/s41586-022-05688-9
Abstract:
Cell identity is governed by the complex regulation of gene expression, represented as gene-regulatory networks[1]. Here we use ge…
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## Aim of the project
This project aims to have full single-cell transcriptomics and tissue proteome expression profiles across different species. These are the possible biological questions:
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Hi!
GRNBoost2 produces an error at the very last step. The same happens when I use GENIE3. It seems to be a problem with Dask, however, I could not figure out what is going on.
**The code:**
``…
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Hi LINGER team,
paper looked really cool! So wanted to try and run on some of my own data and tried to download the general GRN using the wget code provided:
`wget --load-cookies /tmp/cookies.txt …
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Paper: https://www.nature.com/articles/s41592-023-01938-4
Abstract:
Joint profiling of chromatin accessibility and gene expression in individual cells provides an opportunity to decipher enhancer-d…