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Lab Notebooks
TiddlyWiki
Our now deprecated / legacy lab Wiki. Contents are open and citable using its DOI: 10.47673/MacroMolecule
eLabFTW
Our new eLab system. Presently working on making it open and citable. Instructions will follow in due course.
Protocols
Interactome Screening Protocols
2015
Rapid, optimized interactomic screening – original method and results [supplement, protocols]
Affinity proteomics to study endogenous protein complexes – practical guide
2024
Multiparameter Screen Optimizes Immunoprecipitation – [protocol, video]
General Mammalian Protocols
2016
Protein Complex Affinity Capture from Cryomilled Mammalian Cells – original method and results [supplement]
2012
Improved methodology for the affinity isolation of human protein complexes expressed at near endogenous levels – original method and results [supplement]
RNA exosome protocols
2020
Affinity Proteomic Analysis of the Human Exosome and Its Cofactor Complexes
2017
RNA Degradation Assay Using RNA Exosome Complexes, Affinity-purified from HEK-293 Cells
Affinity Purification of the RNA Degradation Complex, the Exosome, from HEK-293 Cells
2016
Purification and analysis of endogenous human RNA exosome complexes – original method and results
General Yeast Protocols
2016
Protein Complex Purification by Affinity Capture – topic introduction
- Optimized Affinity Capture of Yeast Protein Complexes – protocol
- Native Elution of Yeast Protein Complexes Obtained by Affinity Capture – protocol
- Density Gradient Ultracentrifugation to Isolate Endogenous Protein Complexes after Affinity Capture – protocol
2013
Improved Native Isolation of Endogenous Protein A-Tagged Protein Complexes – original method and results [supplement, protocol]
Published code
2022
Mass spectrometry-based proteomic analysis of SDS-insoluble protein aggregates
2020
Algorithm that applies different methods of missing value imputation to mass spectrometry data (IP-MS), depending on the data characteristics
Affinity proteomic dissection of the human nuclear cap-binding complex interactome
LINE-1 ORF2p expression is nearly imperceptible in human cancers
2018
Integrative analysis of macromolecular interactions using mass spectrometry-based affinity proteomic data
Dissection of affinity captured LINE-1 macromolecular complexes