John Aitchison

• 2006 – Membranous GlomerulopathyWith Spherules: An Uncommon VariantWith Obscure Pathogenesis
  
• 2006 – Pex19p Binds Pex30p and Pex32p at Regions Required for Their Peroxisomal Localization but Separate from Their Peroxisomal Targeting Signals*
  
• 2006 – The Dynamin-like Protein Vps1p of the Yeast Saccharomyces cerevisiae Associates with Peroxisomes in a Pex19p-dependent Manner*
  
• 2006 – Expression and functional profiling reveal distinct gene classes involved in fatty acid metabolism
  
• 2006 – The Peroxisomal Membrane Protein Inp2p Is the Peroxisome-Specific Receptor for the Myosin V Motor Myo2p of Saccharomyces cerevisiae
  
  • 2006 – Supplement mmc1

• 2005 – Nop53p is a novel nucleolar 60S ribosomal subunit biogenesis protein
• 2005 – Interactions between Mad1p and the Nuclear Transport Machinery in the Yeast Saccharomyces cerevisiae
• 2005 – Inp1p is a peroxisomal membrane protein required for peroxisome inheritance in Saccharomyces cerevisiae
• 2005 – The mobile nucleoporin Nup2p and chromatin-bound Prp20p function in endogenous NPC-mediated transcriptional control
• 2005 – A data integration methodology for systems biology: Experimental verification
• 2005 – A data integration methodology for systems biology
• 2005 – Proteomic and genomic characterization of chromatin complexes at a boundary
  • Supplementary Tables
  

• 2004 – Pex30p, Pex31p, and Pex32p Form a Family of Peroxisomal Integral Membrane Proteins Regulating Peroxisome Size and Number in Saccharomyces cerevisiae
• 2004 – POSaM: a fast, flexible, open-source, inkjet oligonucleotide synthesizer and microarrayer
• 2004 – Characterization of Karyopherin Cargoes Reveals Unique Mechanisms of Kap121p-Mediated Nuclear Import
• 2004 – Quantitative mass spectrometry reveals a role for the GTPase Rho1p in actin organization on the peroxisome membrane
  • Supplemental Material

• 2003 – YHR150w and YDR479c encode peroxisomal integral membrane proteins involved in the regulation of peroxisome number, size, and distribution in Saccharomyces cerevisiae
• 2003 – Pex11-related Proteins in Peroxisome Dynamics: A Role for the Novel Peroxin Pex27p in Controlling Peroxisome Size and Number in Saccharomyces cerevisiae
• 2003 – Intersection of the Kap123p-Mediated Nuclear Import and Ribosome Export Pathways
• 2003 – Utp8p Is an Essential Intranuclear Component of the Nuclear tRNA Export Machinery of Saccharomyces cerevisiae*
• 2003 – Virtual gating and nuclear transport: the hole picture
• 2003 – Systems biology and elephants
• 2003 – Inventories to insights
• 2003 – Cell Cycle Regulated Transport Controlled by Alterations in the Nuclear Pore Complex

• 2002 – Approaching complete peroxisome characterization by gas-phase fractionation
• 2002 – Karyopherins in nuclear pore biogenesis: a role for Kap121p in the assembly of Nup53p into nuclear pore complexes
• 2002 – Kap121p-Mediated Nuclear Import Is Required for Mating and Cellular Differentiation in Yeast
• 2002 – A Tense Time for the Nuclear Envelope
• 2002 – Transcriptome profiling to identify genes involved in peroxisome assembly and function

• 2001 – Co-translational Interactions of Apoprotein B with the Ribosome and Translocon during Lipoprotein Assembly or Targeting to the Proteasome*
• 2001 – Rrb1p, a Yeast Nuclear WD-Repeat Protein Involved in the Regulation of Ribosome Biosynthesis
• 2001 – Nup2p Dynamically Associates with the Distal Regions of the Yeast Nuclear Pore Complex
• 2001 – A Link between the Synthesis of Nucleoporins and the Biogenesis of the Nuclear Envelope
• 2001 – The dynamics of karyopherin-mediated nuclear transport
• 2001 – The Nuclear Pore Complex as a Transport Machine*

• 2000 – The Yeast Nuclear Pore Complex: Composition, Architecture, and Transport Mechanism
• 2000 – The Road to Ribosomes: Filling Potholes in the Export Pathway

• 1999 – Optic Flow Input to the Hippocampal Formation from the Accessory Optic System
• 1999 – Kap104p-mediated Nuclear Import

• 1998 – Karyopherins and kissing cousins
• 1998 – Apoprotein B100 has a prolonged interaction with the translocon during which its lipidation and translocation change from dependence on the microsomal triglyceride transfer protein to independence
• 1998 – Specific Binding of the Karyopherin Kap121p to a Subunit of the Nuclear Pore Complex Containing Nup53p, Nup59p, and Nup170p

• 1997 – A Distinct Nuclear Import Pathway Used by Ribosomal Proteins

• 1996 – Kap 104p: A Karyopherin Involved in the Nuclear Transport of mRNA Binding Proteins

• 1995 – The Yarrowia liplytica Gene PAY2 Encodes a 42-kDa Peroxisomal Integral Membrane Protein Essential for Matrix Protein Import and Peroxisome Enlargement but Not for Peroxisome Membrane Proliferation
• 1995 – Two Novel Related Yeast Nucleoporins Nupl70p and Nup157p: Complementation with the Vertebrate Homologue Nup155p and Functional Interactions with the Yeast Nuclear Pore-Membrane Protein Pom152p
• 1995 – Nupl20p: A Yeast Nucleoporin Required for NPC Distribution and mRNA Transport

• 1994 – PAY4, a Gene Requiredf or Peroxisome Assembly in the Yeast Yarrowia ZipoZytica, Encodes a Novel Membero f a Family of Putative ATPases*

• 1991 – The Carboxyl-terminal Tripeptide Ala-Lys-Ile Is Essential for Targeting Candida tropicalis Trifunctional Enzyme to Yeast Peroxisomes*

Michael P. Rout

• 2006 – Protease Accessibility Technical Advance Laddering: A Proteomic Tool for Probing Protein Structure
• 2006 – Simple fold composition and modular architecture of the nuclear pore complex
• 2005 – A Method for the Rapid and Efficient Elution of Native Affinity-Purified Protein A Tagged Complexes
• 2005 – Fluorescent Proteins as Proteomic Probes
• 2005 – I-DIRT, A General Method for Distinguishing between Specific and Nonspecific Protein Interactions
• 2005 – Proteomic and genomic characterization of chromatin complexes at a boundary
• 2005 – The nuclear pore complex–associated protein, Mlp2p, binds to the yeast spindle pole body and promotes its efficient assembly
• 2004 – Components of Coated Vesicles and Nuclear Pore Complexes Share a Common Molecular Architecture
• 2004 – Characterization of Karyopherin Cargoes Reveals Unique Mechanisms of Kap121p-Mediated Nuclear Import
• 2004 – Targeted Proteomic Study of the Cyclin-Cdk Module
• 2004 – Robbing from the pore

• 2003 – Virtual gating and nuclear transport: the hole picture
• 2003 – Genetic and Biochemical Evaluation of the Importance of Cdc6 in Regulating Mitotic Exit

• 2002 – Kap121p-Mediated Nuclear Import Is Required for Mating and Cellular Differentiation in Yeast
• 2002 – A Tense Time for the Nuclear Envelope
• 2002 – Cleave to Leave: Structural Insights into the Dynamic Organization of the Nuclear Pore Complex
• 2002 – Isolation of Nuclear Envelope from Saccharomyces cerevisiae

• 2001 – Isolation and Characterization of Subnuclear Compartments from Trypanosoma brucei
• 2001 – Composition and Functional Characterization of Yeast 66S Ribosome Assembly Intermediates
• 2001 – Nup2p Dynamically Associates with the Distal Regions of the Yeast Nuclear Pore Complex
• 2001 – The Nuclear Pore Complex as a Transport Machine*

• 2000 – The Road to Ribosomes: Filling Potholes in the Export Pathway
• 2000 – The Yeast Nuclear Pore Complex: Composition, Architecture, and Transport Mechanism
• 2000 – Pore Relations: Nuclear Pore Complexes and Nucleocytoplasmic Exchange

• 1999 – Proteins Connecting the Nuclear Pore Complex with the Nuclear Interior
• 1999 – TAPping into transport

• 1998 – Three-Dimensional Architecture of the Isolated Yeast Nuclear Pore Complex: Functional and Evolutionary Implications
• 1998 – Karyopherins and kissing cousins

• 1995 – Disruption of the nucleoporin gene NUP133 results in clustering of nuclear pore complexes
• 1995 – The Essential Yeast Nucleoporin NUP159 Is Located on the Cytoplasmic Side of the Nuclear Pore Complex and Serves in Karyopherin-midiated Binding of Transport Subtrate
• 1995 – Isolation and Characterization of Nuclear Envelopes from the Yeast Saccharomyces
• 1995 – Two Novel Related Yeast Nucleoporins Nupl70p and Nup157p: Complementation with the Vertebrate Homologue Nup155p and Functional Interactions with the Yeast Nuclear Pore-Membrane Protein Pom152p
• 1995 – Nupl20p: A Yeast Nucleoporin Required for NPC Distribution and mRNA Transport
• 1995 – POM152 Is an Integral Protein of the Pore Membrane Domain of the Yeast Nuclear Envelope

• 1994 – POM152 Is an Integral Protein of the Pore Membrane Domain of the Yeast Nuclear Envelope
• 1994 – Pores for thought: nuclear pore complex proteins

• 1993 – Isolation of the Yeast Nuclear Pore Complex

• 1992 – A New Family of Yeast Nuclear Pore Complex Proteins

• 1992 – Components of the Yeast Spindle and Spindle Pole Body

Andrej Sali

• 2006 – Comparative Modeling of Drug Target Proteins
• 2006 – Refinement of Protein Structures by Iterative Comparative Modeling and CryoEM Density Fitting
• 2006 – MODBASE: a database of annotated comparative protein structure models and associated resources
• 2006 – Variable gap penalty for protein sequence–structure alignment
• 2006 – Simple fold composition and modular architecture of the nuclear pore complex

• 2005 – The C-type lectin fold as an evolutionary solution for massive sequence variation
• 2005 – Combining electron microscopy and comparative protein structure modeling
• 2005 – New York-Structural GenomiX Research Consortium (NYSGXRC): a large scale center for the protein structure initiative
• 2005 – The optimal size of a globular protein domain: A simple sphere-packing model
• 2005 – Localization of protein-binding sites within families of proteins
• 2005 – Macromolecular Assemblies Highlighted
• 2005 – Multiple cathepsin B isoforms in schistosomula of Trichobilharzia regenti: identification, characterisation and putative role in migration and nutrition
• 2005 – Urokinase-type plasminogen activator is a preferred substrate of the human epithelium serine protease tryptase
  /PRSS22
• 2005 – LS-SNP: large-scale annotation of coding non-synonymous SNPs based on multiple information sources
• 2005 – PIBASE: a comprehensive database of structurally defined protein interfaces
• 2005 – Structural Characterization of Assemblies from Overall Shape and Subcomplex Compositions
• 2005 – Finding Cures for Tropical Diseases: Is Open Source an Answer?
• 2005 – Comparative Protein Structure Modeling
• 2005 – IMPRO VING FUNC TIO NAL ANNO TATIO N O F NO N-SYNO NOMO US SNPs WITH INFO RMATIO N THEO RY
• 2005 – Structural characterization of components of protein assemblies by comparative modeling and electron cryo-microscopy
• 2005 – Detecting remotely related proteins by their interactions and sequence similarity

• 2004 – Finding Cures for Tropical Diseases: Is Open Source an Answer?
• 2004 – Components of Coated Vesicles and Nuclear Pore Complexes Share a Common Molecular Architecture
• 2004 – A structural perspective on protein–protein interactions
• 2004 – Comparative Protein Structure Modeling and its Applications to Drug Discovery
• 2004 – High-Throughput Computational and Experimental Techniques in Structural Genomics
• 2004 – FINDING CURES FOR TROPICAL DISEASES: IS OPEN SOURCE AN ANSWER?
• 2004 – MODBASE, a database of annotated comparative protein structure models, and associated resources
• 2004 – Detection of homologous proteins by an intermediate sequence search
• 2004 – Structure determination of macromolecular complexes by experiment and computation
• 2004 – Alignment of protein sequences by their profiles
• 2004 – Comprehensive search for cysteine cathepsins in the human genome
• 2004 – Structure-Based Assessment of Missense Mutations in Human BRCA1: Implications for Breast and Ovarian Cancer Predisposition

• 2003 – ModLoop: automated modeling of loops in protein structures
• 2003 – NIH Workshop on Structural Proteomics of Biological Complexes
• 2003 – Modeling Protein Structure from Its Sequence
• 2003 – The zebrafish forkhead transcription factor Foxi1 specifies epibranchial placode-derived sensory neurons
• 2003 – Study of the Structural Dynamics of the E. coli 70S Ribosome Using Real-Space Refinement
• 2003 – Tools for comparative protein structure modeling and analysis
• 2003 – Comparative protein structure modeling by iterative alignment, model building and model assessment
• 2003 – EVA: evaluation of protein structure prediction servers
• 2003 – From words to literature in structural proteomics
• 2003 – Comparative Protein Structure Modeling
• 2003 – Modeling Protein Structure from Its Sequence

• 2002 – Use of Single Point Mutations in Domain I of
  2-Glycoprotein I to Determine Fine Antigenic Specificity of Antiphospholipid Autoantibodies1
• 2002 – Comparative Protein Structure Prediction
• 2002 – RasGRP4, a New Mast Cell-restricted Ras Guanine Nucleotidereleasing Protein with Calcium- and Diacylglycerol-binding Motifs
• 2002 – Structural Genomics at the National Synchrotron Light Source
• 2002 – Structural genomics: A pipeline for providing structures for the biologist

• 2001 – Response to Paoli

• 1995 – Kinetics of protein folding

Brian Chait

• 2006 –Synergistic functions of SII and p300 in effecting productive activator-dependent transcription of chromatin templates
• 2006 –A PHD finger of the largest NURF subunit couples histone H3 K4 trimethylation with chromatin remodeling
• 2006 –Regulation of hypermutation by AID phosphorylation
• 2006 –Protease Accessibility Technical Advance Laddering: A Proteomic Tool for Probing Protein Structure Structure
• 2006 –Linker chains of the gigantic hemoglobin of the earthworm Lumbricus terrestris: primary structures of linkers L2, L3, and L4 and analysis of the connectivity of the disulfide bonds in linker L1
• 2006 –Simple fold composition and modular architecture of the nuclear pore complex

• 2005 –The mobile nucleoporin Nup2p and chromatin-bound Prp20p function in endogenous NPC-mediated transcriptional control
• 2005 –A method for the rapid and efficient elution of native affinity–purified Protein A tagged complexes
• 2005 –Quantitative analysis of protein phosphorylation in mouse brain by hypothesis–driven multi–stage mass spectrometry
• 2005 –I–DIRT, A General Method for Distinguishing between Specific and Nonspecific Protein Interactions
• 2005 –Fluorescent proteins as proteomic probes
• 2005 –Long-range allosteric control of cytoplasmic dynein ATPase activity by the stalk and C–terminal domains
• 2005 –The nuclear pore complex–associated protein, Mlp2p, binds to the yeast spindle pole body and promotes its efficient assembly
• 2005 –MED1/TRAP220 exists predominantly in a TRAP/ Mediator subpopulation enriched in RNA polymerase II and is required for ER–mediated transcription
• 2005 –Polyglutamine–expanded ataxin–7 inhibits STAG histone acetylltransferase activity to produce retinal degeneration
• 2005 –Physical association and coordinate function of the H3 K4 methyltransferase MLL1 and the H4 K16 acetyltransferase MOF
• 2005 –Channel function is dissociated from the intrinsic kinase activity and autophosphorylation of TRPM7/CHAK1
• 2005 –Proteomic and Genomic Characterization of Chromatin Complexes at a Boundary
• 2005 –N–terminal Acetylation and protonation of individual hemoglobin subunits
• 2005 –Preferential Phosphorylation of R-Domain Serine 768 Dampens Activation of CFTR Channels by PKA