1D and 2D annotation enrichment: a statistical method integrating quantitative proteomics with complementary high-throughput data

The necessity of adjusting tests of protein category enrichment in discovery proteomics

(2010) Brenton Louie et al.   BIOINFORMATICS

Comparative Proteomic Phenotyping of Cell Lines and Primary Cells to Assess Preservation of Cell Type-specific Functions

(2008) Cuiping Pan et al.   MOLECULAR & CELLULAR PROTEOMICS

Combined Use of RNAi and Quantitative Proteomics to Study Gene Function in Drosophila

(2008) Tiziana Bonaldi et al.   MOLECULAR CELL

Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast

(2008) Lyris M. F. de Godoy et al.   NATURE

MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification

(2008) Jürgen Cox et al.   NATURE BIOTECHNOLOGY

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

GLUE-IT and PEDEL-AA: new programmes for analyzing protein diversity in randomized libraries

(2008) A. E. Firth et al.   NUCLEIC ACIDS RESEARCH

Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

(2008) Da Wei Huang et al.   NUCLEIC ACIDS RESEARCH