1. Human gene-centered transcription factor networks for enhancers and disease variants.

    Cell 161(3):661 (2015) PMID 25910213 PMCID PMC4409666

    Gene regulatory networks (GRNs) comprising interactions between transcription factors (TFs) and regulatory loci control development and physiology. Numerous disease-associated mutations have been identified, the vast majority residing in non-coding regions of the genome. As current GRN mapping m...
  2. Widespread macromolecular interaction perturbations in human genetic disorders.

    Cell 161(3):647 (2015) PMID 25910212 PMCID PMC4441215

    How disease-associated mutations impair protein activities in the context of biological networks remains mostly undetermined. Although a few renowned alleles are well characterized, functional information is missing for over 100,000 disease-associated variants. Here we functionally profile sever...
  3. Protein domain-level landscape of cancer-type-specific somatic mutations.

    PLoS computational biology 11(3):e1004147 (2015) PMID 25794154 PMCID PMC4368709

    Identifying driver mutations and their functional consequences is critical to our understanding of cancer. Towards this goal, and because domains are the functional units of a protein, we explored the protein domain-level landscape of cancer-type-specific somatic mutations. Specifically, we syst...
  4. Spatiotemporal 16p11.2 Protein Network Implicates Cortical Late Mid-Fetal Brain Development and KCTD13-Cul3-RhoA Pathway in Psychiatric Diseases.

    Neuron 85(4):742 (2015) PMID 25695269 PMCID PMC4335356

    The psychiatric disorders autism and schizophrenia have a strong genetic component, and copy number variants (CNVs) are firmly implicated. Recurrent deletions and duplications of chromosome 16p11.2 confer a high risk for both diseases, but the pathways disrupted by this CNV are poorly defined. H...
  5. Spatiotemporal 16p11.2 Protein Network Implicates Cortical Late Mid-Fetal Brain Development and KCTD13-Cul3-RhoA Pathway in Psychiatric Diseases.

    Neuron 85(4):742 (2015) PMID 25695269

    The psychiatric disorders autism and schizophrenia have a strong genetic component, and copy number variants (CNVs) are firmly implicated. Recurrent deletions and duplications of chromosome 16p11.2 confer a high risk for both diseases, but the pathways disrupted by this CNV are poorly defined. H...
  6. Spatiotemporal 16p11.2 Protein Network Implicates Cortical Late Mid-Fetal Brain Development and KCTD13-Cul3-RhoA Pathway in Psychiatric Diseases.

    Neuron 85(4):742 (2015) PMID 25695269 PMCID PMC4335356

    The psychiatric disorders autism and schizophrenia have a strong genetic component, and copy number variants (CNVs) are firmly implicated. Recurrent deletions and duplications of chromosome 16p11.2 confer a high risk for both diseases, but the pathways disrupted by this CNV are poorly defined. H...
  7. Spatiotemporal 16p11.2 Protein Network Implicates Cortical Late Mid-Fetal Brain Development and KCTD13-Cul3-RhoA Pathway in Psychiatric Diseases.

    Neuron 85(4):742 (2015) PMID 25695269

    The psychiatric disorders autism and schizophrenia have a strong genetic component, and copy number variants (CNVs) are firmly implicated. Recurrent deletions and duplications of chromosome 16p11.2 confer a high risk for both diseases, but the pathways disrupted by this CNV are poorly defined. H...
  8. Multiplex single-molecule interaction profiling of DNA-barcoded proteins.

    Nature 515(7528):554 (2014) PMID 25252978 PMCID PMC4246050

    In contrast with advances in massively parallel DNA sequencing, high-throughput protein analyses are often limited by ensemble measurements, individual analyte purification and hence compromised quality and cost-effectiveness. Single-molecule protein detection using optical methods is limited by...
  9. Multiplex single-molecule interaction profiling of DNA-barcoded proteins.

    Nature 515(7528):554 (2014) PMID 25252978 PMCID PMC4246050

    In contrast with advances in massively parallel DNA sequencing, high-throughput protein analyses are often limited by ensemble measurements, individual analyte purification and hence compromised quality and cost-effectiveness. Single-molecule protein detection using optical methods is limited by...
  10. Multiplex single-molecule interaction profiling of DNA-barcoded proteins.

    Nature 515(7528):554 (2014) PMID 25252978 PMCID PMC4246050

    In contrast with advances in massively parallel DNA sequencing, high-throughput protein analyses are often limited by ensemble measurements, individual analyte purification and hence compromised quality and cost-effectiveness. Single-molecule protein detection using optical methods is limited by...
  11. Multiplex single-molecule interaction profiling of DNA-barcoded proteins.

    Nature 515(7528):554 (2014) PMID 25252978 PMCID PMC4246050

    In contrast with advances in massively parallel DNA sequencing, high-throughput protein analyses are often limited by ensemble measurements, individual analyte purification and hence compromised quality and cost-effectiveness. Single-molecule protein detection using optical methods is limited by...
  12. Multiplex single-molecule interaction profiling of DNA-barcoded proteins.

    Nature 515(7528):554 (2014) PMID 25252978 PMCID PMC4246050

    In contrast with advances in massively parallel DNA sequencing, high-throughput protein analyses are often limited by ensemble measurements, individual analyte purification and hence compromised quality and cost-effectiveness. Single-molecule protein detection using optical methods is limited by...
  13. A proteome-scale map of the human interactome network.

    Cell 159(5):1212 (2014) PMID 25416956 PMCID PMC4266588

    Just as reference genome sequences revolutionized human genetics, reference maps of interactome networks will be critical to fully understand genotype-phenotype relationships. Here, we describe a systematic map of ?14,000 high-quality human binary protein-protein interactions. At equal quality, ...
  14. A proteome-scale map of the human interactome network.

    Cell 159(5):1212 (2014) PMID 25416956 PMCID PMC4266588

    Just as reference genome sequences revolutionized human genetics, reference maps of interactome networks will be critical to fully understand genotype-phenotype relationships. Here, we describe a systematic map of ?14,000 high-quality human binary protein-protein interactions. At equal quality, ...
  15. A proteome-scale map of the human interactome network.

    Cell 159(5):1212 (2014) PMID 25416956

    Just as reference genome sequences revolutionized human genetics, reference maps of interactome networks will be critical to fully understand genotype-phenotype relationships. Here, we describe a systematic map of ?14,000 high-quality human binary protein-protein interactions. At equal quality, ...
  16. A Proteome-Scale Map of the Human Interactome Network

    Cell 159(5):1212 (2014)

    Just as reference genome sequences revolutionized human genetics, reference maps of interactome networks will be critical to fully understand genotype-phenotype relationships. Here, we describe a systematic map of ∼14,000 high-quality human binary protein-protein interactions. At equal...
  17. A proteome-scale map of the human interactome network.

    Cell 159(5):1212 (2014) PMID 25416956 PMCID PMC4266588

    Just as reference genome sequences revolutionized human genetics, reference maps of interactome networks will be critical to fully understand genotype-phenotype relationships. Here, we describe a systematic map of ?14,000 high-quality human binary protein-protein interactions. At equal quality, ...
  18. Human Gene-Centered Transcription Factor Networks for Enhancers and Disease Variants

    Cell (2014)

    Gene regulatory networks (GRNs) comprising interactions between transcription factors (TFs) and regulatory loci control development and physiology. Numerous disease-associated mutations have been identified, the vast majority residing in non-coding regions of the genome. As current GRN...
  19. Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage.

    Genes & Development 28(17):1957 (2014) PMID 25184681 PMCID PMC4197947

    BRCA1 is a breast and ovarian tumor suppressor. Given its numerous incompletely understood functions and the possibility that more exist, we performed complementary systematic screens in search of new BRCA1 protein-interacting partners. New BRCA1 functions and/or a better understanding of existi...
  20. Systematic screening reveals a role for BRCA1 in the response to transcription-associated DNA damage.

    Genes & Development 28(17):1957 (2014) PMID 25184681 PMCID PMC4197947

    BRCA1 is a breast and ovarian tumor suppressor. Given its numerous incompletely understood functions and the possibility that more exist, we performed complementary systematic screens in search of new BRCA1 protein-interacting partners. New BRCA1 functions and/or a better understanding of existi...