The BioPlex Network: A Systematic Exploration of the Human Interactome

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Items 101–200 of 1,001

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2. Top-down characterization of endogenous protein complexes with native proteomics
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3. The human cytoplasmic dynein interactome reveals novel activators of motility
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4. Impaired complex I repair causes recessive Leber’s hereditary optic neuropathy
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6. A protein interaction landscape of breast cancer
   Minkyu Kim, Jisoo Park, Mehdi Bouhaddou, Kyumin Kim, Ajda Rojc, Maya Modak, Margaret Soucheray, Michael McGregor, Patrick C. O’Leary, Denise M. Wolf et al. · 2021 · Science
7. Estimating the selective effects of heterozygous protein-truncating variants from human exome data
   Christopher A. Cassa, Donate Weghorn, Daniel J. Balick, Daniel M. Jordan, David P. Nusinow, Kaitlin E. Samocha, Anne O’Donnell‐Luria, Daniel G. MacArthur, Mark J. Daly, David R. Beier et al. · 2017 · Nature Genetics
8. Competitive organelle-specific adaptors recruit Vps13 to membrane contact sites
   Björn D. M. Bean, Samantha Katarzyna Dziurdzik, Kathleen Kolehmainen, Claire Fowler, Waldan K. Kwong, Leslie I. Grad, Michael Davey, Cayetana Schluter, Elizabeth Conibear · 2018 · The Journal of Cell Biology
9. Membraneless nuclear organelles and the search for phases within phases
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10. SHLD2/FAM35A co‐operates with REV7 to coordinate DNA double‐strand break repair pathway choice
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11. Proteome-Scale Human Interactomics
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12. Computational Methods for Understanding Mass Spectrometry–Based Shotgun Proteomics Data
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13. Interrogation of Mammalian Protein Complex Structure, Function, and Membership Using Genome-Scale Fitness Screens
    Joshua Pan, Robin M. Meyers, Brittany C. Michel, Nazar Mashtalir, Ann E. Sizemore, Jonathan N. Wells, Seth H. Cassel, Francisca Vázquez, Barbara A. Weir, William C. Hahn et al. · 2018 · Cell Systems
14. A Simple Cross-Linking/Mass Spectrometry Workflow for Studying System-wide Protein Interactions
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15. Complex‐centric proteome profiling by SEC‐SWATH‐MS
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16. Biology of Tissue Inhibitor of Metalloproteinase 3 (TIMP3), and Its Therapeutic Implications in Cardiovascular Pathology
    Fan Dong, Zamaneh Kassiri · 2020 · Frontiers in Physiology
17. Human RIF1 and protein phosphatase 1 stimulate DNA replication origin licensing but suppress origin activation
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18. Age-related neurodegenerative disease associated pathways identified in retinal and vitreous proteome from human glaucoma eyes
    Mehdi Mirzaei, Veer Bala Gupta, Joel M. Chick, Todd M. Greco, Yunqi Wu, Nitin Chitranshi, Roshana Vander Wall, Eugene Hone, Liting Deng, Yogita Dheer et al. · 2017 · Scientific Reports
19. The 5-phosphatase OCRL in Lowe syndrome and Dent disease 2
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20. Identification of MOSPD2, a novel scaffold for endoplasmic reticulum membrane contact sites
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21. hu.MAP 2.0: integration of over 15,000 proteomic experiments builds a global compendium of human multiprotein assemblies
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22. Mitochondrial fatty acid synthesis coordinates oxidative metabolism in mammalian mitochondria
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23. Histone Interaction Landscapes Visualized by Crosslinking Mass Spectrometry in Intact Cell Nuclei
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24. Senataxin: Genome Guardian at the Interface of Transcription and Neurodegeneration
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25. KDEL Receptors Are Differentially Regulated to Maintain the ER Proteome under Calcium Deficiency
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26. Structures and interactions of syndecans
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27. FFAT motif phosphorylation controls formation and lipid transfer function of inter‐organelle contacts
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28. A Perspective on Extracellular Vesicles Proteomics
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29. Developments in toxicogenomics: understanding and predicting compound-induced toxicity from gene expression data
    Benjamin Alexander-Dann, Lavinia-Lorena Pruteanu, Erin Oerton, Nitin Sharma, Ioana Berindan‐Neagoe, Dezső Módos, Andreas Bender · 2018 · Molecular Omics
30. Stimulation of CRISPR-mediated homology-directed repair by an engineered RAD18 variant
    Tarun S. Nambiar, Pierre Billon, Giacomo Diedenhofen, Samuel B. Hayward, Angelo Taglialatela, Kunheng Cai, Jen‐Wei Huang, Giuseppe Leuzzi, Raquel Cuella-Martin, Andrew Palacios et al. · 2019 · Nature Communications
31. The Psychiatric Cell Map Initiative: A Convergent Systems Biological Approach to Illuminating Key Molecular Pathways in Neuropsychiatric Disorders
    Arthur Jeremy Willsey, Montana T. Morris, Sheng Wang, Helen Rankin Willsey, Nawei Sun, Nia Teerikorpi, Tierney Baum, Gerard Cagney, Kevin J. Bender, Tejal Ashwin Desai et al. · 2018 · Cell
32. A Novel Role for Progesterone Receptor Membrane Component 1 (PGRMC1): A Partner and Regulator of Ferrochelatase
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33. Regulation of the CUL3 Ubiquitin Ligase by a Calcium-Dependent Co-adaptor
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34. TTC25 Deficiency Results in Defects of the Outer Dynein Arm Docking Machinery and Primary Ciliary Dyskinesia with Left-Right Body Asymmetry Randomization
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35. LZTR1 facilitates polyubiquitination and degradation of RAS-GTPases
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36. Dual-Specificity, Tyrosine Phosphorylation-Regulated Kinases (DYRKs) and cdc2-Like Kinases (CLKs) in Human Disease, an Overview
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37. Proximity Biotinylation as a Method for Mapping Proteins Associated with mtDNA in Living Cells
    Shuo Han, Namrata D. Udeshi, Thomas J. Deerinck, Tanya Svinkina, Mark H. Ellisman, Steven A. Carr, Alice Y. Ting · 2017 · Cell chemical biology
38. Identification of VAPA and VAPB as Kv2 Channel-Interacting Proteins Defining Endoplasmic Reticulum–Plasma Membrane Junctions in Mammalian Brain Neurons
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39. Interferon inducible X-linked gene CXorf21 may contribute to sexual dimorphism in Systemic Lupus Erythematosus
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40. ER-phagy responses in yeast, plants, and mammalian cells and their crosstalk with UPR and ERAD
    Maurizio Molinari · 2021 · Developmental Cell
41. The Vps13 Family of Lipid Transporters and Its Role at Membrane Contact Sites
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42. Extracellular nicotinamide phosphoribosyltransferase, a new cancer metabokine
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43. APID interactomes: providing proteome-based interactomes with controlled quality for multiple species and derived networks
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44. Protein networks in the maturation of human iron–sulfur proteins
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45. STRIPAK integrates upstream signals to initiate the Hippo kinase cascade
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46. The social and structural architecture of the yeast protein interactome
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47. ACP Acylation Is an Acetyl-CoA-Dependent Modification Required for Electron Transport Chain Assembly
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48. Kinase Interaction Network Expands Functional and Disease Roles of Human Kinases
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49. A Human IgSF Cell-Surface Interactome Reveals a Complex Network of Protein-Protein Interactions
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50. Zn-regulated GTPase metalloprotein activator 1 modulates vertebrate zinc homeostasis
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51. Erratum: Corrigendum: The ciliopathy-associated CPLANE proteins direct basal body recruitment of intraflagellar transport machinery
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52. Membrane protein-regulated networks across human cancers
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53. Interpretable deep learning translation of GWAS and multi-omics findings to identify pathobiology and drug repurposing in Alzheimer’s disease
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54. Genomic Determinants of Protein Abundance Variation in Colorectal Cancer Cells
    Theodoros I. Roumeliotis, Steven P. Williams, Emanuel Gonçalves, Clara Alsinet, Martin Del Castillo Velasco‐Herrera, Nanne Aben, Fatemeh Zamanzad Ghavidel, Magali Michaut, Michaël Schubert, Stacey Price et al. · 2017 · Cell Reports
55. Altered propionate metabolism contributes to tumour progression and aggressiveness
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56. ALMS1 and Alström syndrome: a recessive form of metabolic, neurosensory and cardiac deficits
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57. An Atlas of Protein-Protein Interactions Across Mouse Tissues
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58. Identification of Miro1 and Miro2 as mitochondrial receptors for myosin XIX
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59. The Mammalian Crumbs Complex Defines a Distinct Polarity Domain Apical of Epithelial Tight Junctions
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60. Network analysis and in silico prediction of protein–protein interactions with applications in drug discovery
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61. Blocking an N-terminal acetylation–dependent protein interaction inhibits an E3 ligase
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62. Genetic risk factors and gene–environment interactions in adult and childhood attention-deficit/hyperactivity disorder
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63. CRISPR screens unveil signal hubs for nutrient licensing of T cell immunity
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64. Molecular Details Underlying Dynamic Structures and Regulation of the Human 26S Proteasome
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65. Towards Building a Plant Cell Atlas
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66. PDZ Domains as Drug Targets
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67. The interactome of KRAB zinc finger proteins reveals the evolutionary history of their functional diversification
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68. Human cytomegalovirus interactome analysis identifies degradation hubs, domain associations and viral protein functions
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69. A Scalable Genome-Editing-Based Approach for Mapping Multiprotein Complexes in Human Cells
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70. Protein complex scaffolding predicted as a prevalent function of long non-coding RNAs
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71. Recent progress in mass spectrometry-based strategies for elucidating protein–protein interactions
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72. Biophysical prediction of protein–peptide interactions and signaling networks using machine learning
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73. The MiDAC histone deacetylase complex is essential for embryonic development and has a unique multivalent structure
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74. RNF166 determines recruitment of adaptor proteins during antibacterial autophagy
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75. FACER: comprehensive molecular and functional characterization of epigenetic chromatin regulators
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76. GGTase3 is a newly identified geranylgeranyltransferase targeting a ubiquitin ligase
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77. Long non-coding RNAs in genitourinary malignancies: a whole new world
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78. Native Chromatin Proteomics Reveals a Role for Specific Nucleoporins in Heterochromatin Organization and Maintenance
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79. The Immunoglobulin Superfamily Receptome Defines Cancer-Relevant Networks Associated with Clinical Outcome
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80. Proteomics Research in Cardiovascular Medicine and Biomarker Discovery
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81. A Network Module for the Perseus Software for Computational Proteomics Facilitates Proteome Interaction Graph Analysis
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82. The methyltransferase METTL9 mediates pervasive 1-methylhistidine modification in mammalian proteomes
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83. DrugMap: A quantitative pan-cancer analysis of cysteine ligandability
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84. MIEF1 Microprotein Regulates Mitochondrial Translation
    Annie Rathore, Qian Chu, Dan Tan, Thomas Farid Martinez, Cynthia J. Donaldson, Jolene K. Diedrich, John R. Yates, Alan Saghatelian · 2018 · Biochemistry
85. Temporal proteomics during neurogenesis reveals large-scale proteome and organelle remodeling via selective autophagy
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86. Systematic autoantigen analysis identifies a distinct subtype of scleroderma with coincident cancer
    George Jing Xu, Ami A. Shah, Mamie Z. Li, Qikai Xu, Antony Rosen, Livia A Casciola-Rosen, Stephen Joseph Elledge · 2016 · Proceedings of the National Academy of Sciences
87. Interactome-based approaches to human disease
    Michael Caldera, Pisanu Buphamalai, Felix Müller, Jörg Menche · 2017 · Current Opinion in Systems Biology
88. Emerging Links between Lipid Droplets and Motor Neuron Diseases
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89. Combinatorial Targeting by MicroRNAs Co-ordinates Post-transcriptional Control of EMT
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90. Verteporfin Inhibits PD-L1 through Autophagy and the STAT1–IRF1–TRIM28 Signaling Axis, Exerting Antitumor Efficacy
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91. Graph embedding and Gaussian mixture variational autoencoder network for end-to-end analysis of single-cell RNA sequencing data
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92. TBC1D23 is a bridging factor for endosomal vesicle capture by golgins at the trans-Golgi
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93. Discovery of short linear motif‐mediated interactions through phage display of intrinsically disordered regions of the human proteome
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94. Temporal dynamics of protein complex formation and dissociation during human cytomegalovirus infection
    Yutaka Hashimoto, Xinlei Sheng, Laura A. Murray‐Nerger, Ileana M. Cristea · 2020 · Nature Communications
95. Universal Spectrum Identifier for mass spectra
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96. Functional variomics and network perturbation: connecting genotype to phenotype in cancer
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97. The role of stabilizing and communicating symptoms given overlapping communities in psychopathology networks
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98. In vivo identification of GTPase interactors by mitochondrial relocalization and proximity biotinylation
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99. Systematic discovery of biomolecular condensate-specific protein phosphorylation
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100. EPIC: software toolkit for elution profile-based inference of protein complexes
     Lucas ZhongMing Hu, Florian Goebels, June H. Tan, Eric J. Wolf, Uroš Kuzmanov, Cuihong Wan, Sadhna Phanse, Changjiang Xu, Mike Schertzberg, Andrew G. Fraser et al. · 2019 · Nature Methods