Pinned Repositories
Celegans-cell2cell
Analyses for cell-cell interactions in C. elegans
CellFie
An alternative approach to capture the breadth of cellular functions by performing a functional analysis of existing biological networks.
GlyCompare
Comparing glycoprofiles, leveraging motif substructure arithmetic
Ligand-Receptor-Pairs
Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
MammalianSecretoryRecon
Secretory Pathway Reconstruction for Human, CHO, and Mouse
NGS-Pipeline
All kinds of NGS analysis pipeline
PinAPL-Py
A no hassle tool for analyzing your favorite CRISPR screen dataset!
RegressionModelPipeline
Pipeline for feature selection, interaction assessment, regression modeling and prediction assessment for 1-1000s of features
secCellFie
Expanding the CellFie tool to include the secretory pathway
StanDep
Code for StanDep Paper
Lewis Lab of Systems Biology & Cell Engineering at UCSD's Repositories
LewisLabUCSD/Ligand-Receptor-Pairs
Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.
LewisLabUCSD/CellFie
An alternative approach to capture the breadth of cellular functions by performing a functional analysis of existing biological networks.
LewisLabUCSD/PinAPL-Py
A no hassle tool for analyzing your favorite CRISPR screen dataset!
LewisLabUCSD/MammalianSecretoryRecon
Secretory Pathway Reconstruction for Human, CHO, and Mouse
LewisLabUCSD/GlyCompare
Comparing glycoprofiles, leveraging motif substructure arithmetic
LewisLabUCSD/Celegans-cell2cell
Analyses for cell-cell interactions in C. elegans
LewisLabUCSD/RegressionModelPipeline
Pipeline for feature selection, interaction assessment, regression modeling and prediction assessment for 1-1000s of features
LewisLabUCSD/secCellFie
Expanding the CellFie tool to include the secretory pathway
LewisLabUCSD/GlyCompareCT
glyCompare command line tool
LewisLabUCSD/AD_secretory_pathway
LewisLabUCSD/Context_Specific_Models_from_GeMS
A systematic evaluation of methods for tailoring genome-scale metabolic models
LewisLabUCSD/HMO_GeneReaction_pred
A flux prediction and network-based approach to resolving gene-reaction relations through transcriptomic and metabolomic data integration
LewisLabUCSD/iLipidome
iLipidome is a novel lipidomic data analysis framework.
LewisLabUCSD/Proteogenomics
Analysis to map update CHO genome annotation using protegenomics method
LewisLabUCSD/StaphVaccine_BCR
This study is for analyzing BCR data of staph vaccine (Cell Host and Microbe).
LewisLabUCSD/AD_secretory_pathway_figs
LewisLabUCSD/autism_classifier
LewisLabUCSD/CCC-Benchmark
Timing code for Tensor-cell2cell paper
LewisLabUCSD/CHO96
Code accompanying manuscript: "Deciphering the determinants of recombinant protein yield across the human secretome"
LewisLabUCSD/cho_dna_variant_call
LewisLabUCSD/CHO_HEK
LewisLabUCSD/CORSPOTS
Correlative Stratification Of Proteome Trajectories
LewisLabUCSD/COSMIC-dFBA
Public code for COSMIC dFBA
LewisLabUCSD/gene-gini-matlab
codes used for calculating and analyzing Gini genes
LewisLabUCSD/iLipidome-package
LewisLabUCSD/iLipidome-website
LewisLabUCSD/Lectin-Sequencing
LewisLabUCSD/LPMO_Proteomics
LewisLabUCSD/Mito_Trace
Tracking cell-lineage using mutations in the mitochondrion genome.
LewisLabUCSD/N-Glycosylation-Markov-Models
Cleaned-up Version