Prediction of the human membrane proteome

No abstract is available for this paper.

• Publication year

  2010

• Venue

  Proteomics

• Publication date

  2010-03-01

• Fields of study

  Biology, Medicine, Materials Science, Computer Science

• Identifiers
  DOI 10.1002/pmic.200900258PMID 20175080
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

• Transmembrane protein topology prediction using support vector machines

  2009influential reference
• Properties and identification of human protein drug targets

  2009cited by this paper
• OCTOPUS: improving topology prediction by two-track ANN-based preference scores and an extended topological grammar

  2008cited by this paper
• A Genecentric Human Protein Atlas for Expression Profiles Based on Antibodies*

  2008cited by this paper
• Ensembl 2009

  2008influential reference
• Prediction of membrane-protein topology from first principles

  2008influential reference
• Toward a Confocal Subcellular Atlas of the Human Proteome*S

  2008cited by this paper
• A Web-based Tool for in Silico Biomarker Discovery Based on Tissue-specific Protein Profiles in Normal and Cancer Tissues*S

  2008cited by this paper
• Sequence analysis SPOCTOPUS: a combined predictor of signal peptides and membrane protein topology

  2008cited by this paper
• IUPHAR-DB: the IUPHAR database of G protein-coupled receptors and ion channels

  2008cited by this paper
• The Universal Protein Resource (UniProt) 2009

  2008cited by this paper
• Drug—target network

  2007cited by this paper
• The membrane protein universe: what's out there and why bother?

  2007cited by this paper
• Improving the accuracy of transmembrane protein topology prediction using evolutionary information

  2007influential reference
• Membrane protein structure: prediction versus reality.

  2007cited by this paper
• The membrane protein universe: what's out there and why bother?

  2007cited by this paper
• Structural classification and prediction of reentrant regions in alpha-helical transmembrane proteins: application to complete genomes.

  2006cited by this paper
• A novel membrane protein, encoded by the gene covering KIAA0233, is transcriptionally induced in senile plaque-associated astrocytes.

  2006cited by this paper
• A general model of G protein‐coupled receptor sequences and its application to detect remote homologs

  2006cited by this paper
• A Human Protein Atlas for Normal and Cancer Tissues Based on Antibody Proteomics*

  2005cited by this paper
• TCDB: the Transporter Classification Database for membrane transport protein analyses and information

  2005cited by this paper
• Tilt angle of a trans-membrane helix is determined by hydrophobic mismatch.

  2005cited by this paper
• Transmembrane helix prediction: a comparative evaluation and analysis.

  2005cited by this paper
• A combined transmembrane topology and signal peptide prediction method.

  2004influential reference
• Tilt angles of transmembrane model peptides in oriented and non-oriented lipid bilayers as determined by 2H solid-state NMR.

  2004cited by this paper
• ConPred II: a consensus prediction method for obtaining transmembrane topology models with high reliability

  2004cited by this paper
• The evolution of transmembrane helix kinks and the structural diversity of G protein-coupled receptors.

  2004cited by this paper
• Improved prediction of signal peptides: SignalP 3.0.

  2004cited by this paper
• Reliability measures for membrane protein topology prediction algorithms.

  2003cited by this paper
• The versatile beta-barrel membrane protein.

  2003cited by this paper
• The application of mass spectrometry to membrane proteomics

  2003cited by this paper
• BPROMPT: a consensus server for membrane protein prediction

  2003cited by this paper
• Predicting the topology of transmembrane helical proteins using mean burial propensity and a hidden‐Markov‐model‐based method

  2003influential reference
• The versatile β-barrel membrane protein

  2003cited by this paper
• Transmembrane helix predictions revisited

  2002cited by this paper
• Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes.

  2001cited by this paper
• From ionic currents to molecular mechanisms: the structure and function of voltage-gated sodium channels.

  2000cited by this paper
• Consensus predictions of membrane protein topology

  2000cited by this paper
• Iterated profile searches with PSI-BLAST--a tool for discovery in protein databases.

  1998influential reference
• A Hidden Markov Model for Predicting Transmembrane Helices in Protein Sequences

  1998influential reference
• Genome‐wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms

  1998cited by this paper
• Membrane protein structure prediction. Hydrophobicity analysis and the positive-inside rule.

  1992cited by this paper
• A simple method for displaying the hydropathic character of a protein.

  1982cited by this paper
• The spontaneous insertion of proteins into and across membranes: the helical hairpin hypothesis.

  1981cited by this paper
• Trans‐membrane Translocation of Proteins

  1979cited by this paper
• Trans-membrane translocation of proteins. The direct transfer model.

  1979cited by this paper

• Oversized nanodiscs for combined structural and functional investigation of multicomponent membrane protein systems

  2025cites this paper
• Cell-free expression and SMA copolymer encapsulation of a functional receptor tyrosine kinase disease variant, FGFR3-TACC3

  2025cites this paper
• Principles of ribosome-associated protein quality control during the synthesis of CFTR

  2025cites this paper
• A simplified optimization approach for sample preparation workflow in LC‐MS‐based quantitative proteomic analysis: Biological samples to peptides

  2025cites this paper
• Determination of protein transporter function using Raman spectroscopy

  2025cites this paper
• Biotinylated RAFT Styrene/Maleic Acid Copolymers for Biosensor Applications of Membrane Proteins

  2025cites this paper
• DNA Tweezers with Replaceable Clamps for the Targeted Degradation of Cell Membrane Proteins

  2025cites this paper
• Positively charged cytoplasmic residues in corin prevent signal peptidase cleavage and endoplasmic reticulum retention

  2025cites this paper
• The Nature of Nanodisc Lipids Influences Fragment‐Based Drug Discovery Results

  2025cites this paper
• Structural and dynamics of apoA-1 mimetic peptide lipid nanodisc assemblies: A molecular dynamics study.

  2025cites this paper
• BioID-Based Proximity Mapping of Transmembrane Proteins in Human Airway Cell Models.

  2025cites this paper
• Leucine aminopeptidase LyLAP enables lysosomal degradation of membrane proteins.

  2025cites this paper
• Impact of System Size on the Biophysical Properties of Multicomponent Lipid Bilayers: A Systematic Study Using Molecular Dynamics Simulations

  2025cites this paper
• TMVisDB: Annotation and 3D-visualization of transmembrane proteins

  2025cites this paper
• Mapping variants in thyroid hormone transporter MCT8 to disease severity by genomic, phenotypic, functional, structural and deep learning integration

  2025influential citation
• The secret life of RNA and lipids

  2025cites this paper
• A Robust Immobilization Method for Membrane Protein SPR Assays Using SpyCatcher-SpyTag.

  2025cites this paper
• Human sensory-like neuron surfaceome analysis

  2025cites this paper
• Multiple Pendants-Bearing Triglucosides for Membrane Protein Studies: Effects of Pendant Length and Number on Micelle Interior Hydration and Protein Stability.

  2025cites this paper
• Membrane-mimetic thermal proteome profiling (MM-TPP) toward mapping membrane protein–ligand dynamic interactions

  2025cites this paper
• Metabolic mapping of the human solute carrier superfamily

  2024cites this paper
• High-Resolution Cryo-Electron Microscopy Structure Determination of Haemophilus influenzae Tellurite-Resistance Protein A via 200 kV Transmission Electron Microscopy

  2024cites this paper
• BEACH domain proteins function as cargo-sorting adaptors in secretory and endocytic pathways

  2024cites this paper
• REMEMProt: a resource of membrane-enriched proteome profiles, their disease associations, and biomarker status

  2024cites this paper
• Comprehensive snapshots of natural killer cells functions, signaling, molecular mechanisms and clinical utilization

  2024cites this paper
• Diagnostic and prognostic value of circulating tumor cells in renal cell cancer: A systematic review and meta-analysis.

  2024cites this paper
• Membranes are functionalized by a proteolipid code

  2024cites this paper
• Surface plasmon resonance microscopy identifies glycan heterogeneity in pancreatic cancer cells that influences mucin-4 binding interactions

  2024cites this paper
• Computational drug development for membrane protein targets

  2024cites this paper
• The structural stability of membrane proteins revisited: Combined thermodynamic and spectral phasor analysis of SDS-induced denaturation of a thermophilic Cu(I)-transport ATPase.

  2024cites this paper
• Extracellular vesicles released by cancer-associated fibroblast-induced myeloid-derived suppressor cells inhibit T-cell function

  2024cites this paper
• Metal organic layers enabled cell surface engineering coupling biomembrane fusion for dynamic membrane proteome profiling

  2023cites this paper
• GLUT4 dispersal at the plasma membrane of adipocytes: a super-resolved journey

  2023cites this paper
• Identification of potential molecular targets for the treatment of cluster 1 human pheochromocytoma and paraganglioma via comprehensive proteomic characterization

  2023cites this paper
• Synthesis and modification of alternative copolymers for activating membrane enzymes in vitro

  2023cites this paper
• S‐acylation: an orchestrator of the life cycle and function of membrane proteins

  2023cites this paper
• AFTM: a database of transmembrane regions in the human proteome predicted by AlphaFold

  2023cites this paper
• Capillary Zone Electrophoresis-Tandem Mass Spectrometry for Top-Down Proteomics of Mouse Brain Integral Membrane Proteins.

  2023cites this paper
• Tris(hydroxymethyl)aminomethane Linker-Bearing Triazine-Based Triglucosides for Solubilization and Stabilization of Membrane Proteins

  2023cites this paper
• The First Quarter Century of the Dense Alignment Surface Transmembrane Prediction Method

  2023cites this paper
• Structural insights into the membrane chaperones for multi-pass membrane protein biogenesis.

  2023cites this paper
• Conservation of knotted and slipknotted topology in transmembrane transporters.

  2023cites this paper
• Live Cells versus Fixated Cells: Kinetic Measurements of Biomolecular Interactions with the LigandTracer Method and Surface Plasmon Resonance Microscopy.

  2023cites this paper
• Structural Insights into Polymer-Bounded Lipid Nanodiscs.

  2023cites this paper
• The membrane surface as a platform that organizes cellular and biochemical processes.

  2023cites this paper
• DNA-nanostructure-templated assembly of planar and curved lipid-bilayer membranes

  2023cites this paper
• Lipid packing is disrupted in copolymeric nanodiscs compared to intact membranes.

  2023cites this paper
• Exploring TCR-like CAR-Engineered Lymphocyte Cytotoxicity against MAGE-A4

  2023cites this paper
• Comprehensive classification of proteins based on structures that engage lipids by COMPOSEL.

  2023cites this paper
• Therapeutic Monoclonal Antibodies against Cancer: Present and Future

  2023cites this paper
• The Effects of Codon Usage on Protein Structure and Folding.

  2023cites this paper
• TCR-NK Cells: A Novel Source for Adoptive Immunotherapy of Cancer

  2023cites this paper
• Lactiplantibacillus plantarum as a novel platform for production and purification of integral membrane proteins using RseP as the benchmark

  2023cites this paper
• The Functionality of Membrane-Inserting Proteins and Peptides: Curvature Sensing, Generation, and Pore Formation

  2023cites this paper
• To Be or Not to Be an Ion Channel: Cryo-EM Structures Have a Say

  2023cites this paper
• Melamine-cored glucosides for membrane protein solubilization and stabilization: importance of water-mediated intermolecular hydrogen bonding in detergent performance

  2023cites this paper
• Cancer Therapy With TCR-Engineered T Cells: Current Strategies, Challenges, and Prospects

  2022cites this paper
• Ribosome-membrane crosstalk: Co-translational targeting pathways of proteins across membranes in prokaryotes and eukaryotes.

  2022cites this paper
• Detergent-Free Isolation of Membrane Proteins and Strategies to Study Them in a Near-Native Membrane Environment

  2022cites this paper
• Chitosan-based matrix solid-phase dispersion extraction assisted cell membrane magnetic bead ligand-affinity assay for screening active compounds from Fructus Cnidii.

  2022cites this paper
• Gold nanomaterials and their potential use as cryo-electron tomography labels.

  2022cites this paper
• Prostate Cancer Secretome and Membrane Proteome from Pten Conditional Knockout Mice Identify Potential Biomarkers for Disease Progression

  2022cites this paper
• Genome-wide single cell annotation of the human protein-coding genes

  2022cites this paper
• Comparing 2 crystal structures and 12 AlphaFold2-predicted human membrane glucose transporters and their water-soluble glutamine, threonine and tyrosine variants

  2022cites this paper
• TMbed – Transmembrane proteins predicted through Language Model embeddings

  2022cites this paper
• Strategies for Successful Over-Expression of Human Membrane Transport Systems Using Bacterial Hosts: Future Perspectives

  2022cites this paper
• Mass Spectrometry Methods for Measuring Protein Stability.

  2022cites this paper
• Cryo-electron Microscopic Analysis of Single-Pass Transmembrane Receptors.

  2022cites this paper
• Measuring Membrane Penetration Depths and Conformational Changes in Membrane Peptides and Proteins

  2022cites this paper
• Intramembrane client recognition potentiates the chaperone functions of calnexin

  2022cites this paper
• Insights into intercellular receptor-ligand binding kinetics in cell communication

  2022cites this paper
• Production of an Active, Human Membrane Protein in Saccharomyces cerevisiae: Full-Length FICD

  2022cites this paper
• TMbed: transmembrane proteins predicted through language model embeddings

  2022cites this paper
• Stabilization and structure determination of integral membrane proteins by termini restraining

  2022cites this paper
• Cell-Free Expression to Probe Co-Translational Insertion of an Alpha Helical Membrane Protein

  2022cites this paper
• Structural informatic study of determined and AlphaFold2 predicted molecular structures of 13 human solute carrier transporters and their water-soluble QTY variants

  2022cites this paper
• A two–tiered system for selective receptor and transporter protein degradation

  2022cites this paper
• Soluble HLA peptidome: A new resource for cancer biomarkers

  2022cites this paper
• Dysregulation of cellular membrane homeostasis as a crucial modulator of cancer risk

  2022cites this paper
• Glyco‐Steroidal Amphiphiles (GSAs) for Membrane Protein Structural Study

  2022cites this paper
• Application of polymersomes in membrane protein study and drug discovery: Progress, strategies, and perspectives

  2022cites this paper
• Refining structural models of membrane proteins with disordered domains in phospholipid nanodiscs

  2022cites this paper
• Insights into Membrane Curvature Sensing and Membrane Remodeling by Intrinsically Disordered Proteins and Protein Regions

  2022cites this paper
• An intrauterine genomic classifier reliably delineates the location of nonviable pregnancies.

  2021cites this paper
• Detergent-free Lipodisq Nanoparticles Facilitate High-Resolution Mass Spectrometry of Folded Integral Membrane Proteins

  2021cites this paper
• Marker residue types at the structural regions of transmembrane alpha‐helical and beta‐barrel interfaces

  2021cites this paper
• Mass spectrometry and the cellular surfaceome.

  2021cites this paper
• How Does Liquid-Liquid Phase Separation in Model Membranes Reflect Cell Membrane Heterogeneity?

  2021cites this paper
• Lighting up the plasma membrane: Development and applications of fluorescent ligands for transmembrane proteins.

  2021cites this paper
• The maximum growth rate hypothesis is correct for eukaryotic photosynthetic organisms, but not cyanobacteria

  2021cites this paper
• EMC is required for biogenesis and membrane insertion of Xport-A, an essential chaperone of rhodopsin-1 and the TRP channel

  2021cites this paper
• Integrative Informatics Analysis of Transcriptome and Identification of Interacted Genes in the Glomeruli and Tubules in CKD

  2021cites this paper
• On-cell nuclear magnetic resonance spectroscopy to probe cell surface interactions.

  2021cites this paper
• Comparing transmembrane protein structures with ATOLL

  2021cites this paper
• EMC is required for biogenesis of Xport‐A, an essential chaperone of Rhodopsin‐1 and the TRP channel

  2021cites this paper
• Influence of the extracellular domain size on the dynamic behavior of membrane proteins

  2021cites this paper
• Modeling lipid-protein interactions for coarse-grained lipid and Cα protein models.

  2021cites this paper
• Recombinant production of membrane proteins in yeast.

  2021cites this paper
• The Tunnel.

  2021cites this paper
• Characterization of Five Transmembrane Proteins: With Focus on the Tweety, Sideroflexin, and YIP1 Domain Families

  2021cites this paper