Multiomic prediction of therapeutic targets for human diseases associated with protein phase separation

Hallmarks of aging-based dual-purpose disease and age-associated targets predicted using PandaOmics AI-powered discovery engine

(2022) Frank W. Pun et al.   Aging-US

FuzDrop on AlphaFold: visualizing the sequence-dependent propensity of liquid–liquid phase separation and aggregation of proteins

(2022) Andras Hatos et al.   NUCLEIC ACIDS RESEARCH

Genetic and Molecular Evaluation of SQSTM1/p62 on the Neuropathologies of Alzheimer’s Disease

(2022) Wei Dong et al.   Frontiers in Aging Neuroscience

Learning the chemical grammar of biomolecular condensates

(2022) Henry R. Kilgore et al.   Nature Chemical Biology

Aβ42 oligomers trigger synaptic loss through CAMKK2-AMPK-dependent effectors coordinating mitochondrial fission and mitophagy

(2022) Annie Lee et al.   Nature Communications

Protein condensation diseases: therapeutic opportunities

(2022) Michele Vendruscolo et al.   Nature Communications

Micro and nano-scale compartments guide the structural transition of silk protein monomers into silk fibers

(2022) D. Eliaz et al.   Nature Communications

Biomolecular condensates and cancer

(2021) Ann Boija et al.   CANCER CELL

Liquid-Liquid Phase Separation in Physiology and Pathophysiology of the Nervous System

(2021) Yasunori Hayashi et al.   JOURNAL OF NEUROSCIENCE

Phase separation of Axin organizes the β-catenin destruction complex

(2021) Junxiu Nong et al.   JOURNAL OF CELL BIOLOGY

Biomolecular condensates at the nexus of cellular stress, protein aggregation disease and ageing

(2021) Simon Alberti et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Intracellular amyloid hypothesis for ultra‐early phase pathology of Alzheimer's disease

(2021) Hitoshi Okazawa   NEUROPATHOLOGY

Serine Metabolism Regulates YAP Activity Through USP7 in Colon Cancer

(2021) Xiaoya Zhao et al.   Frontiers in Cell and Developmental Biology

Role of the Hippo pathway and mechanisms for controlling cellular localization of YAP/TAZ

(2021) Hyeryun Kwon et al.   FEBS Journal

Generic nature of the condensed states of proteins

(2021) Monika Fuxreiter et al.   NATURE CELL BIOLOGY

p62-containing, proteolytically active nuclear condensates, increase the efficiency of the ubiquitin–proteasome system

(2021) Afu Fu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Human Disease Ontology 2022 update

(2021) Lynn M Schriml et al.   NUCLEIC ACIDS RESEARCH

High-yield Production of Amyloid-β Peptide Enabled by a Customized Spider Silk Domain

(2020) Axel Abelein et al.   Scientific Reports

Biophysical properties of AKAP95 protein condensates regulate splicing and tumorigenesis

(2020) Wei Li et al.   NATURE CELL BIOLOGY

α-Synuclein aggregation nucleates through liquid–liquid phase separation

(2020) Soumik Ray et al.   Nature Chemistry

Neuroprotective effects of p62(SQSTM1)-engineered lactic acid bacteria in Alzheimer’s disease: a pre-clinical study

(2020) Valentina Cecarini et al.   Aging-US

Phase Separation and Neurodegenerative Diseases: A Disturbance in the Force

(2020) Aurélie Zbinden et al.   DEVELOPMENTAL CELL

Beyond aggregation: Pathological phase transitions in neurodegenerative disease

(2020) Cécile Mathieu et al.   SCIENCE

The STRING database in 2021: customizable protein–protein networks, and functional characterization of user-uploaded gene/measurement sets

(2020) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

Open Targets Platform: supporting systematic drug–target identification and prioritisation

(2020) David Ochoa et al.   NUCLEIC ACIDS RESEARCH

Widespread occurrence of the droplet state of proteins in the human proteome

(2020) Maarten Hardenberg et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

SQSTM1/p62: a potential target for neurodegenerative disease

(2019) Shifan Ma et al.   ACS Chemical Neuroscience

Targeting liquid-liquid phase separation in pancreatic cancer

(2019) Yue Ming et al.   Translational Cancer Research

Hyperosmotic Stress Initiates AMPK-Independent Autophagy and AMPK- and Autophagy-Independent Depletion of Thioredoxin 1 and Glyoxalase 2 in HT22 Nerve Cells

(2019) Alcir Luiz Dafre et al.   Oxidative Medicine and Cellular Longevity

LLPSDB: a database of proteins undergoing liquid–liquid phase separation in vitro

(2019) Qian Li et al.   NUCLEIC ACIDS RESEARCH

PhaSepDB: a database of liquid–liquid phase separation related proteins

(2019) Kaiqiang You et al.   NUCLEIC ACIDS RESEARCH

Phase separation of YAP reorganizes genome topology for long-term YAP target gene expression

(2019) Danfeng Cai et al.   NATURE CELL BIOLOGY

Restoring Wnt/β-catenin signaling is a promising therapeutic strategy for Alzheimer’s disease

(2019) Lin Jia et al.   Molecular Brain

FUS Phase Separation Is Modulated by a Molecular Chaperone and Methylation of Arginine Cation-π Interactions

(2018) Seema Qamar et al.   CELL

p62 filaments capture and present ubiquitinated cargos for autophagy

(2018) Gabriele Zaffagnini et al.   EMBO JOURNAL

Tau protein liquid–liquid phase separation can initiate tau aggregation

(2018) Susanne Wegmann et al.   EMBO JOURNAL

Role of Liquid–Liquid Phase Separation in Assembly of Elastin and Other Extracellular Matrix Proteins

(2018) Lisa D. Muiznieks et al.   JOURNAL OF MOLECULAR BIOLOGY

Targeting Intrinsically Disordered Transcription Factors: Changing the Paradigm

(2018) K. Tsafou et al.   JOURNAL OF MOLECULAR BIOLOGY

A liquid phase of synapsin and lipid vesicles

(2018) Dragomir Milovanovic et al.   SCIENCE

Cancer Mutations of the Tumor Suppressor SPOP Disrupt the Formation of Active, Phase-Separated Compartments

(2018) Jill J. Bouchard et al.   MOLECULAR CELL

Co-Localization of Glia Maturation Factor with NLRP3 Inflammasome and Autophagosome Markers in Human Alzheimer’s Disease Brain

(2017) Mohammad Ejaz Ahmed et al.   JOURNAL OF ALZHEIMERS DISEASE

AMPK: Mechanisms of Cellular Energy Sensing and Restoration of Metabolic Balance

(2017) Daniel Garcia et al.   MOLECULAR CELL

Biomolecular condensates: organizers of cellular biochemistry

(2017) Salman F. Banani et al.   NATURE REVIEWS MOLECULAR CELL BIOLOGY

ClinVar: improving access to variant interpretations and supporting evidence

(2017) Melissa J Landrum et al.   NUCLEIC ACIDS RESEARCH

Liquid phase condensation in cell physiology and disease

(2017) Yongdae Shin et al.   SCIENCE

p62 links the autophagy pathway and the ubiqutin–proteasome system upon ubiquitinated protein degradation

(2016) Wei Jing Liu et al.   CELLULAR & MOLECULAR BIOLOGY LETTERS

In silico Pathway Activation Network Decomposition Analysis (iPANDA) as a method for biomarker development

(2016) Ivan V. Ozerov et al.   Nature Communications

Disease implication of hyper-Hippo signalling

(2016) Shu-Ping Wang et al.   Open Biology

Ultrastructural Characterization of the Lower Motor System in a Mouse Model of Krabbe Disease

(2016) Valentina Cappello et al.   Scientific Reports

Phase Separation by Low Complexity Domains Promotes Stress Granule Assembly and Drives Pathological Fibrillization

(2015) Amandine Molliex et al.   CELL

The contribution of neuroinflammation to amyloid toxicity in Alzheimer's disease

(2015) Myles R. Minter et al.   JOURNAL OF NEUROCHEMISTRY

X MARCKS the spot: myristoylated alanine-rich C kinase substrate in neuronal function and disease

(2015) Jon J. Brudvig et al.   Frontiers in Cellular Neuroscience

Comprehensive phosphoproteome analysis unravels the core signaling network that initiates the earliest synapse pathology in preclinical Alzheimer's disease brain

(2014) Kazuhiko Tagawa et al.   HUMAN MOLECULAR GENETICS

Wnt signaling in the nervous system and in Alzheimer's disease

(2014) N. C. Inestrosa et al.   Journal of Molecular Cell Biology

Low hippocampal PI(4,5)P2 contributes to reduced cognition in old mice as a result of loss of MARCKS

(2013) Laura Trovò et al.   NATURE NEUROSCIENCE

The CAMKK2-AMPK Kinase Pathway Mediates the Synaptotoxic Effects of Aβ Oligomers through Tau Phosphorylation

(2013) Georges Mairet-Coello et al.   NEURON

A Novel Effect of MARCKS Phosphorylation by Activated PKC: The Dephosphorylation of Its Serine 25 in Chick Neuroblasts

(2013) Andrea Toledo et al.   PLoS One

Directed differentiation of human pluripotent stem cells to cerebral cortex neurons and neural networks

(2012) Yichen Shi et al.   Nature Protocols

Oligomeric amyloid-β peptide disrupts phosphatidylinositol-4,5-bisphosphate metabolism

(2008) Diego E Berman et al.   NATURE NEUROSCIENCE