https://pubmed.ncbi.nlm.nih.gov/12701331/
Barabási, A., & Bonabeau, E. (2003). Scale-Free networks. Scientific American, 288(5), 60–69.
https://doi.org/10.1038/scientificamerican0503-60
Posts Tagged ‘cbb752’
Scale-free networks – PubMed
February 3, 2025Comprehensive integration of single-cell data – PMC
February 3, 2025https://pmc.ncbi.nlm.nih.gov/articles/PMC6687398/
(Description of cell type annotation. See fig. 1, which is explained in the beginning of Results section)
Stuart, T., Butler, A., Hoffman, P., Hafemeister, C., Papalexi, E., Mauck, W. M., Hao, Y., Stoeckius, M., Smibert, P., & Satija, R. (2019). Comprehensive integration of Single-Cell data. Cell, 177(7), 1888-1902.e21. https://doi.org/10.1016/j.cell.2019.05.031
Diffusion pseudotime robustly reconstructs lineage branching | Nature Methods
February 3, 2025https://www.nature.com/articles/nmeth.3971
Haghverdi, L., Büttner, M., Wolf, F. A., Buettner, F., & Theis, F. J. (2016). Diffusion pseudotime robustly reconstructs lineage branching. Nature Methods, 13(10), 845–848. https://doi.org/10.1038/nmeth.3971
(first page summarizes the Pseudotime algorithm)
Tutorial: guidelines for the computational analysis of single-cell RNA sequencing data | Nature Protocols
February 3, 2025https://www.nature.com/articles/s41596-020-00409-w
(Single Cell overview; goes over every step)
Andrews, T. S., Kiselev, V. Y., McCarthy, D., & Hemberg, M. (2020). Tutorial: guidelines for the computational analysis of single-cell RNA sequencing data. Nature Protocols, 16(1), 1–9.
https://doi.org/10.1038/s41596-020-00409-w
Fast unfolding of communities in large networks – IOPscience
February 3, 2025Genome-wide association studies | Nature Reviews Methods Primers
January 25, 2025g accounts for the cumulative effect of all other variants on the phenotype besides the effect of the specific variant being tested (SNP s).
Although theoretically we should consider the effect of g when testing for GWAS associations, in practice don’t think this happens in standard GWAS tools, such as PLINK and REGENIE (see below).
PLINK: https://www.cog-genomics.org/plink/2.0/assoc
REGENIE: https://www.nature.com/articles/s41588-021-00870-7#Sec10
https://www.nature.com/articles/s43586-021-00056-9
HarvardX: CS50’s Introduction to Programming with Python | edX
August 17, 2024ICA applications on deconvolutions
May 17, 2024Here are some links for ICA deconvolution on omics data:
https://bmcmedgenomics.biomedcentral.com/articles/10.1186/s12920-019-0578-4 https://urszulaczerwinska.github.io/UCzPhDThesis/deconica.html https://academic.oup.com/nar/article/49/9/e54/6146629
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6751789/
https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1008647
GPT-4 Technical Report
June 25, 2023Just stumbled on this. Amazing how well GPT-4 seems to do on AP tests. One notable exception is AP English. I wonder why?
https://twitter.com/mattgroh/status/1635755153830584321
https://cdn.openai.com/papers/gpt-4.pdf
Test results that gpt4 can get; Doesn’t do well in ap English
