Andrew Emili

Andrew Emili's AcademicInfluence.com Rankings

Andrew Emili

Philosophy

#8133

World Rank

#11457

Historical Rank

Logic

#5164

World Rank

#6539

Historical Rank

philosophy Degrees

Download Badge

Philosophy

Andrew Emili's Degrees

Bachelors Chemistry Stanford University

Why Is Andrew Emili Influential?

(Suggest an Edit or Addition)

(See a Problem?)

Andrew Emili's Published Works

Number of citations in a given year to any of this author's works

Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author

Published Works

Global landscape of protein complexes in the yeast Saccharomyces cerevisiae (2006) (2968)
Quantifying E. coli Proteome and Transcriptome with Single-Molecule Sensitivity in Single Cells (2010) (1850)
Enrichment Map: A Network-Based Method for Gene-Set Enrichment Visualization and Interpretation (2010) (1746)
Nanoparticle size and surface chemistry determine serum protein adsorption and macrophage uptake. (2012) (1495)
A Bayesian Networks Approach for Predicting Protein-Protein Interactions from Genomic Data (2003) (1355)
Interaction network containing conserved and essential protein complexes in Escherichia coli (2005) (1146)
Functional dissection of protein complexes involved in yeast chromosome biology using a genetic interaction map (2007) (908)
Characterization of the proteins released from activated platelets leads to localization of novel platelet proteins in human atherosclerotic lesions. (2004) (827)
Cotranscriptional Set2 Methylation of Histone H3 Lysine 36 Recruits a Repressive Rpd3 Complex (2005) (821)
Navigating the Chaperone Network: An Integrative Map of Physical and Genetic Interactions Mediated by the Hsp90 Chaperone (2005) (801)
A Census of Human Soluble Protein Complexes (2012) (754)
Methylation of Histone H3 by Set2 in Saccharomyces cerevisiae Is Linked to Transcriptional Elongation by RNA Polymerase II (2003) (707)
Protein corona fingerprinting predicts the cellular interaction of gold and silver nanoparticles. (2014) (647)
A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. (2003) (627)
RNA Polymerase II Elongation Factors of Saccharomyces cerevisiae: a Targeted Proteomics Approach (2002) (537)
A phosphatase complex that dephosphorylates γH2AX regulates DNA damage checkpoint recovery (2006) (481)
Global Survey of Organ and Organelle Protein Expression in Mouse: Combined Proteomic and Transcriptomic Profiling (2006) (470)
Panorama of ancient metazoan macromolecular complexes (2015) (400)
Defining the SUMO-modified Proteome by Multiple Approaches in Saccharomyces cerevisiae* (2005) (398)
High-definition macromolecular composition of yeast RNA-processing complexes. (2004) (392)
Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins (2009) (379)
Statistical and Computational Methods for Comparative Proteomic Profiling Using Liquid Chromatography-Tandem Mass Spectrometry (2005) (327)
Amino acid starvation induced by invasive bacterial pathogens triggers an innate host defense program. (2012) (324)
Tissue subcellular fractionation and protein extraction for use in mass-spectrometry-based proteomics (2006) (321)
Regulation of chromosome stability by the histone H2A variant Htz1, the Swr1 chromatin remodeling complex, and the histone acetyltransferase NuA4. (2004) (292)
A Panoramic View of Yeast Noncoding RNA Processing (2003) (269)
Species-specific interaction of the glutamine-rich activation domains of Sp1 with the TATA box-binding protein. (1994) (255)
A dual function of the CRISPR–Cas system in bacterial antivirus immunity and DNA repair (2011) (253)
eSGA: E. coli synthetic genetic array analysis (2008) (238)
Interaction landscape of membrane-protein complexes in Saccharomyces cerevisiae (2012) (233)
An atlas of chaperone–protein interactions in Saccharomyces cerevisiae: implications to protein folding pathways in the cell (2009) (231)
Secreted biomolecules alter the biological identity and cellular interactions of nanoparticles. (2014) (231)
MEC1-dependent phosphorylation of Rad9p in response to DNA damage. (1998) (227)
Proteasome involvement in the repair of DNA double-strand breaks. (2004) (226)
The binary protein-protein interaction landscape of Escherichia coli (2014) (208)
Sequential Peptide Affinity (SPA) system for the identification of mammalian and bacterial protein complexes. (2004) (204)
Informatics Platform for Global Proteomic Profiling and Biomarker Discovery Using Liquid Chromatography-Tandem Mass Spectrometry*S (2004) (200)
De novo peptide sequencing and quantitative profiling of complex protein mixtures using mass-coded abundance tagging (2002) (200)
Splicing and transcription-associated proteins PSF and p54nrb/nonO bind to the RNA polymerase II CTD. (2002) (198)
Integrating gene and protein expression data: pattern analysis and profile mining. (2005) (193)
Chaperone Control of the Activity and Specificity of the Histone H3 Acetyltransferase Rtt109 (2008) (191)
A Genome-Wide Screen Identifies the Evolutionarily Conserved KEOPS Complex as a Telomere Regulator (2006) (184)
PIPE: a protein-protein interaction prediction engine based on the re-occurring short polypeptide sequences between known interacting protein pairs (2006) (181)
Dynamic interaction of DNA damage checkpoint protein Rad53 with chromatin assembly factor Asf1. (2001) (181)
Multiple Alignment of Continuous Time Series (2004) (159)
PRISM, a Generic Large Scale Proteomic Investigation Strategy for Mammals*S (2003) (158)
Discovery of a chemical probe for the L3MBTL3 methyl-lysine reader domain (2012) (157)
H2B Ubiquitin Protease Ubp8 and Sgf11 Constitute a Discrete Functional Module within the Saccharomyces cerevisiae SAGA Complex (2005) (145)
Apolipoprotein A-I Promotes the Formation of Phosphatidylcholine Core Aldehydes That Are Hydrolyzed by Paraoxonase (PON-1) during High Density Lipoprotein Oxidation with a Peroxynitrite Donor* (2001) (139)
The ctf13-30/CTF13 Genomic Haploinsufficiency Modifier Screen Identifies the Yeast Chromatin Remodeling Complex RSC, Which Is Required for the Establishment of Sister Chromatid Cohesion (2004) (139)
β‐Subunit appendages promote 20S proteasome assembly by overcoming an Ump1‐dependent checkpoint (2007) (139)
Multidimensional protein identification technology (MudPIT): Technical overview of a profiling method optimized for the comprehensive proteomic investigation of normal and diseased heart tissue (2005) (136)
Identifying functional modules in the physical interactome of Saccharomyces cerevisiae (2007) (134)
Cardiovascular proteomics: tools to develop novel biomarkers and potential applications. (2006) (134)
JlpA of Campylobacter jejuni interacts with surface‐exposed heat shock protein 90α and triggers signalling pathways leading to the activation of NF‐κB and p38 MAP kinase in epithelial cells (2003) (133)
Proteome Dynamics during C2C12 Myoblast Differentiation*S (2005) (132)
Role for PSF in Mediating Transcriptional Activator-Dependent Stimulation of Pre-mRNA Processing In Vivo (2005) (130)
Cotranscriptional Set 2 Methylation of Histone H 3 Lysine 36 Recruits a Repressive Rpd 3 Complex (2005) (124)
A Role for SlyD in the Escherichia coli Hydrogenase Biosynthetic Pathway* (2005) (124)
Proteomic methods for drug target discovery. (2008) (123)
The extensive and condition-dependent nature of epistasis among whole-genome duplicates in yeast. (2008) (119)
Multiparameter functional diversity of human C2H2 zinc finger proteins (2016) (115)
Comparative Proteomics Profiling of a Phospholamban Mutant Mouse Model of Dilated Cardiomyopathy Reveals Progressive Intracellular Stress Responses*S (2008) (106)
A Lentiviral Functional Proteomics Approach Identifies Chromatin Remodeling Complexes Important for the Induction of Pluripotency* (2010) (105)
Assessment of a method to characterize antibody selectivity and specificity for use in immunoprecipitation (2015) (104)
Quantitative Genome-Wide Genetic Interaction Screens Reveal Global Epistatic Relationships of Protein Complexes in Escherichia coli (2014) (101)
Recent advances and method development for drug target identification. (2010) (100)
Genetic Interaction Maps in Escherichia coli Reveal Functional Crosstalk among Cell Envelope Biogenesis Pathways (2011) (99)
Computational prediction of cancer-gene function (2007) (96)
Slx4 regulates DNA damage checkpoint-dependent phosphorylation of the BRCT domain protein Rtt107/Esc4. (2005) (96)
A negative genetic interaction map in isogenic cancer cell lines reveals cancer cell vulnerabilities (2013) (91)
Hsc70 Regulates Accumulation of Cyclin D1 and Cyclin D1-Dependent Protein Kinase (2003) (91)
Global landscape of cell envelope protein complexes in Escherichia coli (2017) (91)
In silico proteome analysis to facilitate proteomics experiments using mass spectrometry (2003) (90)
A Global Analysis of the Receptor Tyrosine Kinase-Protein Phosphatase Interactome. (2017) (90)
Difference detection in LC-MS data for protein biomarker discovery (2007) (89)
Membrane proteomics by high performance liquid chromatography–tandem mass spectrometry: Analytical approaches and challenges (2013) (88)
SARS-CoV-2 Spike Protein Interacts with Multiple Innate Immune Receptors (2020) (87)
Cardiac-specific overexpression of sarcolipin in phospholamban null mice impairs myocyte function that is restored by phosphorylation (2006) (86)
An acetylated form of histone H2A.Z regulates chromosome architecture in Schizosaccharomyces pombe (2009) (85)
Protein-protein interaction networks: probing disease mechanisms using model systems (2013) (85)
Impaired tRNA Nuclear Export Links DNA Damage and Cell-Cycle Checkpoint (2007) (83)
Structure of a SLC26 anion transporter STAS domain in complex with acyl carrier protein: implications for E. coli YchM in fatty acid metabolism. (2010) (81)
Multiple substrates for paraoxonase-1 during oxidation of phosphatidylcholine by peroxynitrite. (2002) (81)
Conserved Network of Proteins Essential for Bacterial Viability (2009) (79)
Perspectives on ENCODE (2020) (79)
Human tissue profiling with multidimensional protein identification technology. (2005) (74)
A Snf 2 Family ATPase Complex Required for Recruitment of the Histone H 2 A Variant Htz (2003) (74)
The Escherichia coli Phosphotyrosine Proteome Relates to Core Pathways and Virulence (2013) (71)
Perinuclear cohibin complexes maintain replicative life span via roles at distinct silent chromatin domains. (2011) (71)
RPRD1A and RPRD1B Are Human RNA Polymerase II C-Terminal Domain Scaffolds for Ser5 Dephosphorylation (2014) (68)
Integrated proteomic and transcriptomic profiling of mouse lung development and Nmyc target genes (2007) (68)
Identification and Characterization of Elf1, a Conserved Transcription Elongation Factor in Saccharomyces cerevisiae (2005) (67)
Pathway analysis of dilated cardiomyopathy using global proteomic profiling and enrichment maps (2010) (66)
Control of the RNA polymerase II phosphorylation state in promoter regions by CTD interaction domain-containing proteins RPRD1A and RPRD1B (2011) (66)
BuGZ is required for Bub3 stability, Bub1 kinetochore function, and chromosome alignment. (2014) (65)
Human-chromatin-related protein interactions identify a demethylase complex required for chromosome segregation. (2014) (64)
Bacteriome.org—an integrated protein interaction database for E. coli (2007) (62)
Formation of a Distinctive Complex between the Inducible Bacterial Lysine Decarboxylase and a Novel AAA+ ATPase* (2006) (61)
Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2 (2020) (58)
DLG5 connects cell polarity and Hippo signaling protein networks by linking PAR-1 with MST1/2 (2016) (58)
Constitutively active calcineurin induces cardiac endoplasmic reticulum stress and protects against apoptosis that is mediated by α-crystallin-B (2010) (56)
Roles for Pbp1 and caloric restriction in genome and lifespan maintenance via suppression of RNA-DNA hybrids. (2014) (55)
Constructing Treatment Portfolios Using Affinity Propagation (2008) (54)
Organoids Model Transcriptional Hallmarks of Oncogenic KRAS Activation in Lung Epithelial Progenitor Cells. (2020) (54)
Sarcolipin retention in the endoplasmic reticulum depends on its C-terminal RSYQY sequence and its interaction with sarco(endo)plasmic Ca(2+)-ATPases. (2004) (54)
Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome (2008) (54)
Systems-level analyses identify extensive coupling among gene expression machines (2006) (50)
Panomics for Precision Medicine. (2018) (50)
Association with the origin recognition complex suggests a novel role for histone acetyltransferase Hat1p/Hat2p (2007) (49)
hnRNP E1 and E2 have distinct roles in modulating HIV-1 gene expression (2007) (49)
Sequential peptide affinity purification system for the systematic isolation and identification of protein complexes from Escherichia coli. (2009) (47)
EPIC: software toolkit for elution profile-based inference of protein complexes (2019) (47)
Hypoxia-Induced Changes in the Fibroblast Secretome, Exosome, and Whole-Cell Proteome Using Cultured, Cardiac-Derived Cells Isolated from Neonatal Mice. (2017) (47)
Target Identification by Chromatographic Co-elution: Monitoring of Drug-Protein Interactions without Immobilization or Chemical Derivatization* (2012) (46)
Retention of protein complex membership by ancient duplicated gene products in budding yeast. (2007) (46)
Going global: protein expression profiling using shotgun mass spectrometry. (2003) (45)
PDX-derived organoids model in vivo drug response and secrete biomarkers (2020) (44)
Novel function discovery with GeneMANIA: a new integrated resource for gene function prediction in Escherichia coli (2015) (44)
Multidimensional protein identification technology: current status and future prospects (2005) (42)
Native KCC2 interactome reveals PACSIN1 as a critical regulator of synaptic inhibition (2017) (40)
Interactions of elongation factor EF‐P with the Escherichia coli ribosome (2008) (40)
Interaction of tau with HNRNPA2B1 and N6-methyladenosine RNA mediates the progression of tauopathy. (2021) (38)
Identification of biochemical adaptations in hyper- or hypocontractile hearts from phospholamban mutant mice by expression proteomics. (2004) (36)
Interaction of the Deubiquitinating Enzyme Ubp2 and the E3 Ligase Rsp5 Is Required for Transporter/Receptor Sorting in the Multivesicular Body Pathway (2009) (36)
Systematic characterization of the protein interaction network and protein complexes in Saccharomyces cerevisiae using tandem affinity purification and mass spectrometry. (2009) (36)
Systematic Genetic Screens Reveal the Dynamic Global Functional Organization of the Bacterial Translation Machinery. (2016) (36)
Interactions of the Escherichia coli hydrogenase biosynthetic proteins: HybG complex formation (2006) (35)
Assessment of separation methods for extracellular vesicles from human and mouse brain tissues and human cerebrospinal fluids. (2020) (35)
A systematic characterization of Cwc21, the yeast ortholog of the human spliceosomal protein SRm300. (2009) (35)
Conditional Epistatic Interaction Maps Reveal Global Functional Rewiring of Genome Integrity Pathways in Escherichia coli. (2016) (35)
Evaluation of data-dependent versus targeted shotgun proteomic approaches for monitoring transcription factor expression in breast cancer. (2008) (34)
Proteomic Analysis of SRm160-containing Complexes Reveals a Conserved Association with Cohesin* (2005) (34)
Promoter-dependent Photocross-linking of the Acidic Transcriptional Activator E2F-1 to the TATA-binding Protein (*) (1995) (33)
A Mutation in Hnrnph1 That Decreases Methamphetamine-Induced Reinforcement, Reward, and Dopamine Release and Increases Synaptosomal hnRNP H and Mitochondrial Proteins (2019) (33)
Systems-level approaches for identifying and analyzing genetic interaction networks in Escherichia coli and extensions to other prokaryotes. (2009) (33)
A Skeleton of the Human Protein Interactome (2005) (32)
Single-platform 'multi-omic' profiling: unified mass spectrometry and computational workflows for integrative proteomics-metabolomics analysis. (2018) (32)
Biosynthesis of the respiratory formate dehydrogenases from Escherichia coli: characterization of the FdhE protein (2008) (32)
Predict, prevent and personalize: Genomic and proteomic approaches to cardiovascular medicine. (2007) (32)
BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. (2020) (32)
Global protein shotgun expression profiling of proliferating mcf-7 breast cancer cells. (2005) (32)
Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics (2015) (31)
The MoxR ATPase RavA and Its Cofactor ViaA Interact with the NADH:Ubiquinone Oxidoreductase I in Escherichia coli (2014) (31)
SARS-CoV-2 Disrupts Proximal Elements in the JAK-STAT Pathway (2021) (31)
Improved proteomic discovery by sample pre-fractionation using dual-column ion-exchange high performance liquid chromatography. (2007) (30)
Global proteomic analyses define an environmentally contingent Hsp90 interactome and reveal chaperone-dependent regulation of stress granule proteins and the R2TP complex in a fungal pathogen (2019) (30)
Global phosphoproteomic profiling reveals perturbed signaling in a mouse model of dilated cardiomyopathy (2016) (29)
Analyzing the cardiac muscle proteome by liquid chromatography-mass spectrometry-based expression proteomics. (2007) (29)
Integrative genomics positions MKRN1 as a novel ribonucleoprotein within the embryonic stem cell gene regulatory network (2015) (28)
The profile of adsorbed plasma and serum proteins on methacrylic acid copolymer beads: Effect on complement activation. (2017) (28)
Practical proteomic biomarker discovery: taking a step back to leap forward. (2005) (26)
Integrating global proteomic and genomic expression profiles generated from islet alpha cells: opportunities and challenges to deriving reliable biological inferences. (2005) (26)
Modulation of lymphocyte-mediated tissue repair by rational design of heterocyclic aryl hydrocarbon receptor agonists (2020) (26)
DAnCER: Disease-Annotated Chromatin Epigenetics Resource (2010) (26)
Characterization of the interaction between the acidic activation domain of VP16 and the RNA polymerase II initiation factor TFIIB. (1996) (25)
Phosphoproteomic network analysis in the sea urchin Strongylocentrotus purpuratus reveals new candidates in egg activation (2015) (25)
Genome-scale genetic manipulation methods for exploring bacterial molecular biology. (2012) (25)
The phosphocarrier protein HPr of the bacterial phosphotransferase system globally regulates energy metabolism by directly interacting with multiple enzymes in Escherichia coli (2017) (24)
Systems analysis reveals down-regulation of a network of pro-survival miRNAs drives the apoptotic response in dilated cardiomyopathy. (2015) (23)
Sequential interval motif search: unrestricted database surveys of global MS/MS data sets for detection of putative post-translational modifications. (2008) (23)
Ubp2 Regulates Rsp5 Ubiquitination Activity In Vivo and In Vitro (2013) (23)
TPR is required for the efficient nuclear export of mRNAs and lncRNAs from short and intron-poor genes (2020) (23)
An Unbiased Chemical Proteomics Method Identifies FabI as the Primary Target of 6-OH-BDE-47. (2016) (23)
Extracellular histones identified in crocodile blood inhibit in-vitro HIV-1 infection (2016) (22)
The RNA polymerase II carboxy-terminal domain: links to a bigger and better 'holoenzyme'? (1995) (22)
Corrigendum: A phosphatase complex that dephosphorylates γH2AX regulates DNA damage checkpoint recovery (2006) (21)
Global quantitative proteomic profiling through 18O-labeling in combination with MS/MS spectra analysis. (2009) (21)
Hsp110 is required for spindle length control (2012) (21)
The evolutionary landscape of the chromatin modification machinery reveals lineage specific gains, expansions, and losses (2010) (21)
G9a and ZNF644 Physically Associate to Suppress Progenitor Gene Expression during Neurogenesis (2016) (21)
Patient-specific iPSCs carrying an SFTPC mutation reveal the intrinsic alveolar epithelial dysfunction at the inception of interstitial lung disease (2020) (21)
Extracting high confidence protein interactions from affinity purification data: at the crossroads. (2015) (20)
Investigating the in vivo activity of the DeaD protein using protein–protein interactions and the translational activity of structured chloramphenicol acetyltransferase mRNAs (2007) (20)
Single amino acid resolution of proteolytic fragments generated in individual cells (2010) (20)
Species-specific interaction of the glutamine-rich activation domains of Sp1 with the TATA box-binding protein (1994) (20)
Monomeric C‐reactive protein via endothelial CD31 for neurovascular inflammation in an ApoE genotype‐dependent pattern: A risk factor for Alzheimer’s disease? (2021) (19)
Imaging the future: the emerging era of single‐cell spatial proteomics (2020) (19)
Experimental and computational procedures for the assessment of protein complexes on a genome-wide scale. (2007) (19)
FZD4 Marks Lateral Plate Mesoderm and Signals with NORRIN to Increase Cardiomyocyte Induction from Pluripotent Stem Cell-Derived Cardiac Progenitors (2017) (18)
ComplexQuant: high-throughput computational pipeline for the global quantitative analysis of endogenous soluble protein complexes using high resolution protein HPLC and precision label-free LC/MS/MS. (2013) (18)
Mapping of determinants required for the function of the HIV-1 env nuclear retention sequence. (2003) (18)
Intracellular Density of Wolbachia Is Mediated by Host Autophagy and the Bacterial Cytoplasmic Incompatibility Gene cifB in a Cell Type-Dependent Manner in Drosophila melanogaster (2021) (17)
Identification of mammalian protein complexes by lentiviral-based affinity purification and mass spectrometry. (2011) (17)
SARS-CoV-2 desensitizes host cells to interferon through inhibition of the JAK-STAT pathway (2020) (17)
Protein complexes, big data, machine learning and integrative proteomics: lessons learned over a decade of systematic analysis of protein interaction networks (2017) (16)
Interpretation of large-scale quantitative shotgun proteomic profiles for biomarker discovery. (2008) (16)
The Nitrogen Regulatory PII Protein (GlnB) and N-Acetylglucosamine 6-Phosphate Epimerase (NanE) Allosterically Activate Glucosamine 6-Phosphate Deaminase (NagB) in Escherichia coli (2017) (16)
Integrative network analysis of signaling in human CD34+ hematopoietic progenitor cells by global phosphoproteomic profiling using TiO2 enrichment combined with 2D LC‐MS/MS and pathway mapping (2013) (15)
Synthetic Peptide Arrays for Pathway-Level Protein Monitoring by Liquid Chromatography-Tandem Mass Spectrometry* (2010) (15)
Unbiased phosphoproteomic method identifies the initial effects of a methacrylic acid copolymer on macrophages (2015) (15)
Predicting protein functions by relaxation labelling protein interaction network (2010) (15)
the TATA box-binding protein . glutamine-rich activation domains of Sp 1 with Species-specific interaction of the (14)
Computational refinement of post-translational modifications predicted from tandem mass spectrometry (2011) (14)
Array-based synthetic genetic screens to map bacterial pathways and functional networks in Escherichia coli. (2011) (14)
Subcellular proteomics (2021) (13)
Application of quantitative proteomics technologies to the biomarker discovery pipeline for multiple sclerosis (2013) (13)
Egr1 mediates the effect of insulin on leptin transcription in adipocytes (2019) (13)
Exercise-responsive phosphoproteins in the heart. (2017) (13)
Network Biology (2011) (12)
Triphenyl phosphate is a selective PPARγ modulator that does not induce brite adipogenesis in vitro and in vivo (2019) (12)
Ribosome-Dependent ATPase Interacts with Conserved Membrane Protein in Escherichia coli to Modulate Protein Synthesis and Oxidative Phosphorylation (2011) (12)
Hsc 70 Regulates Accumulation of Cyclin D 1 and Cyclin D 1-Dependent Protein Kinase (2003) (12)
Actionable Cytopathogenic Host Responses of Human Alveolar Type 2 Cells to SARS-CoV-2 (2021) (11)
Quantitative proteomic profiling reveals novel region‐specific markers in the adult mouse brain (2014) (10)
Mapping signalling perturbations in myocardial fibrosis via the integrative phosphoproteomic profiling of tissue from diverse sources (2020) (10)
Expanding the Landscape of Chromatin Modification (CM)-Related Functional Domains and Genes in Human (2010) (10)
Identification of protein complexes in Escherichia coli using sequential peptide affinity purification in combination with tandem mass spectrometry. (2012) (10)
Mapping bacterial functional networks and pathways in Escherichia Coli using synthetic genetic arrays. (2012) (10)
Global Landscape of Native Protein Complexes in Synechocystis sp. PCC 6803 (2020) (10)
Protein Interaction Network Biology in Neuroscience (2020) (10)
Loss of G-Protein Pathway Suppressor 2 Promotes Tumor Growth Through Activation of AKT Signaling (2021) (9)
Large-scale label-free phosphoproteomics: from technology to data interpretation. (2014) (9)
Discovery of Novel Disease-specific and Membrane-associated Candidate Markers in a Mouse Model of Multiple Sclerosis* (2013) (9)
Usher syndrome type 1-associated gene, pcdh15b, is required for photoreceptor structural integrity in zebrafish (2021) (8)
Proteome-wide dataset supporting the study of ancient metazoan macromolecular complexes (2015) (8)
Targeted protein identification, quantification and reporting for high-resolution nanoflow targeted peptide monitoring. (2013) (8)
Non-parametric Bayesian approach to post-translational modification refinement of predictions from tandem mass spectrometry (2013) (8)
Recombinant Lloviu virus as a tool to study viral replication and host responses (2022) (8)
A scalable robotic-based laboratory automation system for medium-sized biotechnology laboratories (2005) (7)
Pancreatic tumor organoids for modeling in vivo drug response and discovering clinically-actionable biomarkers (2019) (7)
Localization of phosphorylated B-crystallin to heart mitochondria during ischemia-reperfusion (2008) (7)
Mass spectrometry methods to study protein-metabolite interactions (2017) (7)
TPR is required for the nuclear export of mRNAs and lncRNAs from intronless and intron-poor genes (2019) (7)
RPRD 1 A and RPRD 1 B Are Human RNA Polymerase II C-Terminal Domain Scaffolds for Ser 5 Dephosphorylation (2014) (6)
Large-scale characterization of the murine cardiac proteome. (2013) (6)
BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain. (2020) (6)
The protein organization of a red blood cell (2021) (6)
Critical Evaluation of Product Ion Selection and Spectral Correlation Analysis for Biomarker Screening Using Targeted Peptide Multiple Reaction Monitoring (2009) (6)
MKRN2 Physically Interacts with GLE1 to Regulate mRNA Export and Zebrafish Retinal Development. (2020) (6)
Humanized mice reveal a macrophage-enriched gene signature defining human lung tissue protection during SARS-CoV-2 infection (2022) (6)
Neuralized-like protein 4 (NEURL4) mediates ADP-ribosylation of mitochondrial proteins (2022) (5)
ADP-ribosylation of mitochondrial proteins is mediated by Neuralized-like protein 4 (NEURL4) (2020) (5)
A Bayesian Model That Links Microarray mRNA Measurements to Mass Spectrometry Protein Measurements (2007) (5)
Array-based synthetic genetic screens to map bacterial pathways and functional networks in Escherichia coli. (2011) (5)
Uncovering early markers of cardiac disease by proteomics: avoiding (heart) failure! (2005) (5)
Nine steps to proteomic wisdom: A practical guide to using protein‐protein interaction networks and molecular pathways as a framework for interpreting disease proteomic profiles (2007) (5)
Omics Notebook: robust, reproducible and flexible automated multiomics exploratory analysis and reporting (2021) (5)
High‐resolution biomarker discovery: Moving from large‐scale proteome profiling to quantitative validation of lead candidates (2008) (5)
Characterization and evolutionary analysis of protein-protein interaction networks. (2012) (4)
Simple and Effective Affinity Purification Procedures for Mass Spectrometry-Based Identification of Protein-Protein Interactions in Cell Signaling Pathways. (2016) (4)
Scalable multiplex co-fractionation/mass spectrometry platform for accelerated protein interactome discovery (2022) (4)
Hardware Flexibility of Laboratory Automation Systems: Analysis and New Flexible Automation Architectures (2006) (4)
Systems Analysis of Chromatin-Related Protein Complexes in Cancer (2014) (4)
Dengue Virus Infection of Aedes aegypti Alters Extracellular Vesicle Protein Cargo to Enhance Virus Transmission (2020) (4)
Conceptual Design for an Automated High-Throughput Magnetic Protein Complex Purification Workcell (2003) (4)
A novel yeast protein influencing the response of RNA polymerase II to transcriptional activators. (1998) (4)
The chemical biology of coronavirus host–cell interactions (2020) (3)
Enrichment of Phosphorylated Tau (Thr181) and Functionally Interacting Molecules in Chronic Traumatic Encephalopathy Brain-derived Extracellular Vesicles (2021) (3)
Genetic basis of thermal nociceptive sensitivity and brain weight in a BALB/c reduced complexity cross (2022) (3)
Experimental and Computational Procedures for the Assessment of Protein Complexes on a Genome‐Wide Scale (2007) (3)
Using phosphoproteomics to monitor disregulated signaling networks in cardiac disease preceding heart failure. (2013) (3)
Incorporating Correlations among Gene Ontology Terms into Predicting Protein Functions (2011) (3)
Conceptual Design for an Automated High-Throughput Magnetic Protein Complex Purification Workcell (2003) (3)
Mass Spectrometry-Based Phosphoproteomics and Systems Biology. Approaches to Study T Lymphocyte Activation and Exhaustion. (2021) (3)
Protein-Protein Interactions from Genomic Data A Bayesian Networks Approach for Predicting (2006) (2)
Investigating Bacterial Protein Synthesis Using Systems Biology Approaches. (2015) (2)
Large-scale studies to identify biomarkers for heart disease: a role for proteomics? (2009) (2)
Platelet proteome analysis reveals an early hyperactive phenotype in SARS-CoV-2-infected humanized ACE2 mice (2021) (2)
A multi-tiered map of EMT defines major transition points and identifies vulnerabilities (2021) (2)
Mass-Spectrometry-Based Functional Proteomic and Phosphoproteomic Technologies and Their Application for Analyzing Ex Vivo and In Vitro Models of Hypertrophic Cardiomyopathy (2021) (2)
Mapping global protein contacts (2019) (2)
Hardware flexibility of laboratory automation systems: analysis and new flexible automation architectures. (2007) (2)
Enhanced Proteomic Analysis by HPLC Prefractionation (2010) (2)
Multiomic Metabolic Enrichment Network Analysis Reveals Metabolite–Protein Physical Interaction Subnetworks Altered in Cancer (2021) (2)
DNAJB1-PRKACA in HEK293T cells induces LINC00473 overexpression that depends on PKA signaling (2021) (2)
Mass-Coded Abundance Tagging for Protein Identification and Relative Abundance Determination in Proteomic Experiments (2005) (1)
Automated Computational Inference of Multi-protein Assemblies from Biochemical Co-purification Data. (2018) (1)
ToxoNet: A high confidence map of protein-protein interactions in Toxoplasma gondii reveals novel virulence factors implicated in host cell invasion (2021) (1)
The cyclin dependent kinase inhibitor Roscovitine prevents diet-induced metabolic disruption in obese mice (2021) (1)
Correction: Recombinant Lloviu virus as a tool to study viral replication and host responses (2022) (1)
A topology-sharing based method for protein function prediction via analysis of protein functional association networks (2009) (1)
Macrophages govern antiviral responses in human lung tissues protected from SARS-CoV-2 infection (2021) (1)
Identification of enzyme-converted peptide products from single cells using capillary electrophoresis and liquid chromatography-mass spectrometry. (2012) (1)
Zhx2 Is a Candidate Gene Underlying Oxymorphone Metabolite Brain Concentration Associated with State-Dependent Oxycodone Reward (2022) (1)
Applicability of Chromatographic Co‐Elution for Antibiotic Target Identification (2020) (1)
ZFC3H1 and U1-70K promote the nuclear retention of mRNAs with 5’ splice site motif within nuclear speckles (2021) (1)
Integrating Global Proteomic and Genomic Expression Profiles Generated from Islet α Cells (2005) (1)
Global proteomic profiling and enrichment maps of dilated cardiomyopathy. (2013) (1)
Discovery of Biomarkers for Cardiovascular Diseases (2008) (1)
Macromolecular Connectivity Landscape of Mammalian Brain (2018) (1)
ZFC3H1 and U1-70K promote the nuclear retention of mRNAs with 5′ splice site motifs within nuclear speckles (2022) (1)
Nonparametric Bayesian Approach to Post-translational Modification Refinement of Predictions from Tandem Mass Spectrometry (2012) (1)
Screening of the Biological Interactions of Methacrylic Acid Polymers (2014) (1)
Pathway-Level Protein Monitoring by LC-MS/MS (2010) (1)
Functional Proteomics (2019) (1)
Recombinant Lloviu virus as a model to study inaccessible zoonotic viruses (2021) (1)
Protein-Protein Interaction Profiling in Candida albicans Revealed by Biochemical Purification-Mass Spectrometry (BP/MS). (2019) (1)
bind to the RNA polymerase II CTD . Splicing and transcription-associated (2002) (1)
Faculty Opinions recommendation of Large-scale characterization of HeLa cell nuclear phosphoproteins. (2004) (1)
Bioinformatics Application: Predicting Protein Subcellular Localization by Applying Machine Learning (2009) (0)
A comparison of computational strategies for multi-label prediction of protein subcellular localizations (2007) (0)
DESP: Demixing Cell State Profiles from Dynamic Bulk Molecular Measurements (2023) (0)
Competition between distinct ApoE alleles and mCRP for the endothelial receptor CD31 differentially regulates neurovascular inflammation and Alzheimer’s disease pathology (2021) (0)
Quantitative Analysis of Proteome Localisation and Dynamics (2009) (0)
Author Correction: Perspectives on ENCODE (2022) (0)
Author Correction: Expanded encyclopaedias of DNA elements in the human and mouse genomes (2022) (0)
High resolution photocatalytic mapping of SARS-CoV-2 Spike protein-host cell membrane interactions (2022) (0)
The linoleate synthase ene lds1 is involved in fumonisins synthesis and reproduction of Fusarium verticillioides (2013) (0)
Abstract P137: Proteomic And Phosphoproteomic Profiling Reveals Structural And Functional Changes In The Abdominal Aorta Of Male Sprague Dawley Rats That Associate With Age-dependent Hypertension (2022) (0)
A novel approach to gene-set enrichment for two-class time-course expression data (2008) (0)
Proteogest: a tool for facilitating proteomics using mass spectrometry (2004) (0)
Lost in translation: five grand challenges for proteomic biomarker discovery. (2007) (0)
Mapping signalling perturbations in myocardial fibrosis via the integrative phosphoproteomic profiling of tissue from diverse sources (2020) (0)
Materials and Methods S1 (2009) (0)
Proteomics and phosphoproteomics of failing human left ventricle identifies dilated cardiomyopathy-associated phosphorylation of CTNNA3. (2023) (0)
Exercise-responsive phosphoproteins in the heart . 1 2 (2018) (0)
Protein-protein interaction networks: probing disease mechanisms using model systems (2013) (0)
Front Cover: Protein Interaction Network Biology in Neuroscience (2021) (0)
mitochondria during ischemia-reperfusion B-crystallin to heart α Localization of phosphorylated (2012) (0)
Author response: Determining composition of micron-scale protein deposits in neurodegenerative disease by spatially targeted optical microproteomics (2015) (0)
Disease ‘interactome’ maps that may one day point to NEW diagnostics (2017) (0)
Factor quinolinone inhibitors disrupt spindles and multiple LSF (TFCP2)-protein interactions in mitosis, including with microtubule-associated proteins (2022) (0)
Integrative proteomic and phosphoproteomic analysis of ischemic and dilated cardiomyopathy cardiac tissue from human explants (2022) (0)
Identifying the Secretome and Transmembrane Proteins of Non‐Professional Phagocytes (2019) (0)
An In Vivo Platform to Dissect Myeloid-Mediated Mechanisms of Protection Against Respiratory Viruses (2021) (0)
Activation of RNA Polymerase II Mediated Transcription (1997) (0)
PRISM: a new strategy to analyze the mammalian proteome (2004) (0)
Global Characterization of Protein Complexes by Biochemical Purification-Mass Spectrometry (BP/MS). (2018) (0)
protein interactions without immobilization or chemical derivatization (2012) (0)
Pilot Study Showing Feasibility of Phosphoproteomic Profiling of Pathway-Level Molecular Alterations in Barrett’s Esophagus (2022) (0)
Faculty Opinions recommendation of Analysis of serum proteomic patterns for early cancer diagnosis: drawing attention to potential problems. (2004) (0)
Resource Conditional Epistatic Inter actionMaps Reveal Global Functional Rewiring ofGenome Integrity Pathways in Escherichia coli Graphical (2016) (0)
EPIC: software toolkit for elution profile-based inference of protein complexes (2019) (0)
Inhibition of Mul1-mediated ubiquitination promotes mitochondria-associated translation (2021) (0)
Species-Specific Interaction oftheGlutamine-Rich Activation DomainsofSplwiththeTATA Box-Binding Protein (1994) (0)
Proteomic and phosphoproteomic profiling in heart failure with preserved ejection fraction (HFpEF) (2022) (0)
Filtering and interpreting large-scale experimental protein-protein interaction data. (2011) (0)
The nuclear transport machinery controls the localization of Mad 1 p and modulates its function in the spindle assembly checkpoint (2005) (0)
A reduced complexity cross between BALB/c substrains identifies Zhx2 as a candidate gene underlying oxycodone metabolite brain concentration and state‐dependent learning of opioid reward (2022) (0)
Multi-Omics Profiling of Hypertrophic Cardiomyopathy Reveals Altered Mechanisms in Mitochondrial Dynamics and Excitation–Contraction Coupling (2023) (0)
Single-cell Analyses of the Escherichia Coli Proteome with Single-molecule Sensitivity (2009) (0)
Two-Dimensional Biochemical Purification for Global Proteomic Analysis of Macromolecular Protein Complexes. (2018) (0)
Abstract MP216: Identification Of Novel Phosphoprotein Signaling Pathways In Human Dilated Cardiomyopathy By Integrative Proteomic And Phosphoproteomic Analysis (2021) (0)
2TA3-03 Global protein expression profiling with single molecule sensitivity reveals the architecture of biological noise(The 47th Annual Meeting of the Biophysical Society of Japan) (2009) (0)
HNRNPA2B1 Mediates the Association of Oligomeric Tau with N 6-Methyladenosine and Neurodegeneration (2020) (0)
Pathway analysis of dilated cardiomyopathy using global proteomic profiling and enrichment maps (2010) (0)
Abstract 15641: Profiling the Altered Cellular and Secreted Proteome of Cardiac Fibroblasts in Hypoxia Through Label-free Quantitation (2016) (0)
Pluripotent Stem Cells to Unravel the Role of Alveolar Type 2 Epithelial Cells in the Pathogenesis of Pulmonary Fibrosis (2019) (0)
Parallelized multidimensional analytic framework applied to mammary epithelial cells uncovers regulatory principles in EMT (2023) (0)
Histone Methyltransferase Complexes in Transcription, Development, and Cancer (2014) (0)
GPS2-mediated regulation of the adipocyte secretome modulates adipose tissue remodeling at the onset of diet-induced obesity (2023) (0)
collagen and mechanical forces Biomechanics of the lung parenchyma: critical roles of (2005) (0)
2P-096 Global protein expression profiling with single molecule sensitivity reveals the architecture of biological noise(Molecular genetics & Gene expression,The 47th Annual Meeting of the Biophysical Society of Japan) (2009) (0)
Integrated multi-omics analysis of adverse cardiac remodeling and metabolic inflexibility upon ErbB2 and ERRα deficiency (2022) (0)
Faculty Opinions recommendation of Assigning function to yeast proteins by integration of technologies. (2004) (0)
A Complex Containing HNRNPA2B1 and N6-methyladenosine Modified Transcripts Mediates Actions of Toxic Tau Oligomers (2020) (0)
2SD1025 Quantifying the Escherichia coli proteome and transcriptome in a single cell with single-molecule sensitivity(2SD Bridging Single Molecule Biophysics and System Biology:New Experimental and Theoretical Challenges,The 48th Annual Meeting of the Biophysical Society of Japan) (2010) (0)
A Complex Containing HNRNPA2B1 and N 6-Methyladenosine Modified Transcripts Mediates Actions of Toxic Tau Oligomers (2020) (0)

This paper list is powered by the following services:

What Schools Are Affiliated With Andrew Emili?

Andrew Emili is affiliated with the following schools:

University of California, Berkeley
Boston University
Yale University
University of Oxford
University of California, Los Angeles
Stanford University
University of Toronto