Repositories list

• GlycoMSNetworking

  Public
  Jupyter Notebook

  •0•0•0•0•Updated Dec 20, 2024Dec 20, 2024

• secRecon-Secretory-Pathway-Reconstruction

  Public
  HTML

  •0•0•0•0•Updated Nov 13, 2024Nov 13, 2024

• COSMIC-dFBA

  Public
  Public code for COSMIC dFBA

  MATLAB

  •

  Creative Commons Zero v1.0 Universal

  •0•0•0•0•Updated Apr 6, 2024Apr 6, 2024

• N-Glycosylation-Markov-Models

  Public
  Cleaned-up Version

  MATLAB

  •0•1•0•0•Updated Dec 21, 2023Dec 21, 2023

• iLipidome-website

  Public
  R

  •0•0•0•0•Updated Jul 27, 2023Jul 27, 2023

• iLipidome

  Public
  iLipidome is a novel lipidomic data analysis framework.

  systems-biologynetwork-analysislipidomics

  R

  •0•1•0•0•Updated Jul 21, 2023Jul 21, 2023

• iLipidome-package

  Public
  HTML

  •

  Other

  •0•0•0•0•Updated Jul 21, 2023Jul 21, 2023

• CHO96

  Public
  Code accompanying manuscript: "Deciphering the determinants of recombinant protein yield across the human secretome"

  HTML

  •1•0•0•0•Updated May 25, 2023May 25, 2023

• secCellFie

  Public
  Expanding the CellFie tool to include the secretory pathway

  HTML

  •0•3•0•0•Updated Apr 13, 2023Apr 13, 2023

• Mito_Trace

  Public
  Tracking cell-lineage using mutations in the mitochondrion genome.

  Jupyter Notebook

  •0•0•21•0•Updated Mar 16, 2023Mar 16, 2023

• GlyCompare

  Public
  Comparing glycoprofiles, leveraging motif substructure arithmetic

  Jupyter Notebook

  •

  MIT License

  •2•9•4•1•Updated Jan 29, 2023Jan 29, 2023

• GlyCompareCT

  Public
  glyCompare command line tool

  Python

  •1•3•1•0•Updated Jan 29, 2023Jan 29, 2023

• Ligand-Receptor-Pairs

  Public
  Compendium of available lists of ligand-receptor pairs and surface-secreted protein interactions.

  34•124•2•0•Updated Jan 20, 2023Jan 20, 2023

• Celegans-cell2cell

  Public
  Analyses for cell-cell interactions in C. elegans

  Jupyter Notebook

  •1•6•0•0•Updated Nov 22, 2022Nov 22, 2022

• CellFie

  Public
  An alternative approach to capture the breadth of cellular functions by performing a functional analysis of existing biological networks.

  MATLAB

  •

  GNU General Public License v3.0

  •5•11•0•1•Updated Oct 19, 2022Oct 19, 2022

• autism_classifier

  Public
  Jupyter Notebook

  •2•0•0•0•Updated Sep 18, 2022Sep 18, 2022

• StaphVaccine_BCR

  Public
  This study is for analyzing BCR data of staph vaccine (Cell Host and Microbe).

  R

  •0•0•0•0•Updated Sep 7, 2022Sep 7, 2022

• Lectin-Sequencing

  Public
  GNU General Public License v3.0

  •0•0•0•0•Updated Dec 1, 2021Dec 1, 2021

• CORSPOTS

  Public
  Correlative Stratification Of Proteome Trajectories

  Jupyter Notebook

  •0•0•0•0•Updated Oct 12, 2021Oct 12, 2021

• MammalianSecretoryRecon

  Public
  Secretory Pathway Reconstruction for Human, CHO, and Mouse

  Jupyter Notebook

  •9•10•1•0•Updated Aug 24, 2021Aug 24, 2021

• CCC-Benchmark

  Public
  Timing code for Tensor-cell2cell paper

  Python

  •0•0•0•0•Updated Jul 27, 2021Jul 27, 2021

• cho_dna_variant_call

  Public
  Python

  •0•0•0•0•Updated Jul 21, 2021Jul 21, 2021

• AD_secretory_pathway_figs

  Public
  R

  •0•0•0•0•Updated May 13, 2021May 13, 2021

• PinAPL-Py

  Public
  A no hassle tool for analyzing your favorite CRISPR screen dataset!

  Python

  •10•11•1•1•Updated Apr 16, 2021Apr 16, 2021

• AD_secretory_pathway

  Public
  Jupyter Notebook

  •0•1•0•0•Updated Apr 11, 2021Apr 11, 2021

• LPMO_Proteomics

  Public
  MATLAB

  •0•0•0•0•Updated Jan 14, 2021Jan 14, 2021

• RegressionModelPipeline

  Public
  Pipeline for feature selection, interaction assessment, regression modeling and prediction assessment for 1-1000s of features

  R

  •1•4•3•0•Updated Jan 9, 2021Jan 9, 2021

• gene-gini-matlab

  Public
  codes used for calculating and analyzing Gini genes

  MATLAB

  •0•0•0•0•Updated Dec 22, 2020Dec 22, 2020

• HMO_GeneReaction_pred

  Public
  A flux prediction and network-based approach to resolving gene-reaction relations through transcriptomic and metabolomic data integration

  Jupyter Notebook

  •

  Apache License 2.0

  •0•1•0•0•Updated Oct 21, 2020Oct 21, 2020

• CHO_HEK

  Public
  R

  •0•0•0•0•Updated Sep 5, 2020Sep 5, 2020