Cargando…

Extracting functional insights from loss-of-function screens using deep link prediction

We present deep link prediction (DLP), a method for the interpretation of loss-of-function screens. Our approach uses representation-based link prediction to reprioritize phenotypic readouts by integrating screening experiments with gene-gene interaction networks. We validate on 2 different loss-of-...

Descripción completa

Detalles Bibliográficos
Autores principales:	Strybol, Pieter-Paul, Larmuseau, Maarten, de Schaetzen van Brienen, Louise, Van den Bulcke, Tim, Marchal, Kathleen
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Elsevier 2022
Materias:	Article
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9017186/ https://www.ncbi.nlm.nih.gov/pubmed/35474966 http://dx.doi.org/10.1016/j.crmeth.2022.100171

Ejemplares similares

Network-Based Analysis to Identify Drivers of Metastatic Prostate Cancer Using GoNetic
por: de Schaetzen van Brienen, Louise, et al.
Publicado: (2021)

Halvade somatic: Somatic variant calling with Apache Spark
por: Decap, Dries, et al.
Publicado: (2022)

Comparative analysis of somatic variant calling on matched FF and FFPE WGS samples
por: de Schaetzen van Brienen, Louise, et al.
Publicado: (2020)

Whole Slide Imaging-Based Prediction of TP53 Mutations Identifies an Aggressive Disease Phenotype in Prostate Cancer
por: Pizurica, Marija, et al.
Publicado: (2023)

Associating expression and genomic data using co-occurrence measures
por: Larmuseau, Maarten, et al.
Publicado: (2019)

Query-based biclustering of gene expression data using Probabilistic Relational Models
por: Zhao, Hui, et al.
Publicado: (2011)

SynTReN: a generator of synthetic gene expression data for design and analysis of structure learning algorithms
por: Van den Bulcke, Tim, et al.
Publicado: (2006)

Semantic and Generalized Entropy Loss Functions for Semi-Supervised Deep Learning
por: Gajowniczek, Krzysztof, et al.
Publicado: (2020)

Validating module network learning algorithms using simulated data
por: Michoel, Tom, et al.
Publicado: (2007)

AMY-tree: an algorithm to use whole genome SNP calling for Y chromosomal phylogenetic applications
por: Van Geystelen, Anneleen, et al.
Publicado: (2013)

Do patients with chronic unilateral orofacial pain due to a temporomandibular disorder show increased attending to somatosensory input at the painful side of the jaw?
por: Van Damme, Stefaan, et al.
Publicado: (2018)

Toward Quantification of Agitation in People With Dementia Using Multimodal Sensing
por: Davidoff, Hannah, et al.
Publicado: (2022)

VariantDB: a flexible annotation and filtering portal for next generation sequencing data
por: Vandeweyer, Geert, et al.
Publicado: (2014)

Is Rumination after Bereavement Linked with Loss Avoidance? Evidence from Eye-Tracking
por: Eisma, Maarten C., et al.
Publicado: (2014)

Functional MRI during Hippocampal Deep Brain Stimulation in the Healthy Rat Brain
por: Van Den Berge, Nathalie, et al.
Publicado: (2015)

A rare case of a preperitoneal epidermoid cyst
por: Rappaport, Annelies, et al.
Publicado: (2022)

From leaf to label: A robust automated workflow for stomata detection
por: Meeus, Sofie, et al.
Publicado: (2020)

Insights into catalysis and function of phosphoribosyl-linked serine ubiquitination
por: Kalayil, Sissy, et al.
Publicado: (2018)

Enhanced analysis of real-time PCR data by using a variable efficiency model: FPK-PCR
por: Lievens, Antoon, et al.
Publicado: (2012)

Comparing Class-Aware and Pairwise Loss Functions for Deep Metric Learning in Wildlife Re-Identification †
por: Dlamini, Nkosikhona, et al.
Publicado: (2021)

The Link between VAPB Loss of Function and Amyotrophic Lateral Sclerosis
por: Borgese, Nica, et al.
Publicado: (2021)

Simulation of between Repeat Variability in Real Time PCR Reactions
por: Lievens, Antoon, et al.
Publicado: (2012)

Fragmentation: loss of global coherence or breakdown of modularity in functional brain architecture?
por: van den Berg, Daan, et al.
Publicado: (2012)

Estimating Y-Str Mutation Rates and Tmrca Through Deep-Rooting Italian Pedigrees
por: Boattini, Alessio, et al.
Publicado: (2019)

Frequency-based haplotype reconstruction from deep sequencing data of bacterial populations
por: Pulido-Tamayo, Sergio, et al.
Publicado: (2015)

Deep sequencing of Danish Holstein dairy cattle for variant detection and insight into potential loss-of-function variants in protein coding genes
por: Das, Ashutosh, et al.
Publicado: (2015)

Implementation of precision medicine in (routine) cancer care in Belgium in a fair and equitable way
por: Schmitt, T, et al.
Publicado: (2023)

Impairment of microbial and meiofaunal ecosystem functions linked to algal forest loss
por: Bianchelli, Silvia, et al.
Publicado: (2020)

ALS-linked loss of Cyclin-F function affects HSP90
por: Siebert, Alexander, et al.
Publicado: (2022)

Linking microarray reporters with protein functions
por: Gaj, Stan, et al.
Publicado: (2007)

Forecasting of Patient-Specific Kidney Transplant Function With a Sequence-to-Sequence Deep Learning Model
por: Van Loon, Elisabet, et al.
Publicado: (2021)

Design of Loss Functions for Solving Inverse Problems Using Deep Learning
por: Rivera, Jon Ander, et al.
Publicado: (2020)

Frequency-domain loss function for deep exposure correction of dark images
por: Yadav, Ojasvi, et al.
Publicado: (2021)

Towards a Pathogenic Escherichia coli Detection Platform Using Multiplex SYBR®Green Real-Time PCR Methods and High Resolution Melting Analysis
por: Kagkli, Dafni-Maria, et al.
Publicado: (2012)

Loss of CARM1 is linked to reduced HuR function in replicative senescence
por: Pang, Lijun, et al.
Publicado: (2013)

Loss-of-function variant in SPIN4 causes an X-linked overgrowth syndrome
por: Lui, Julian C., et al.
Publicado: (2023)

Deep latency: A new insight into a functional HIV cure
por: Elsheikh, Maher M., et al.
Publicado: (2019)

Development, Testing, and Implementation of the Belgian Patient Reported Experience Measure for Pancreatic Cancer Care (PREPARE) Project: Protocol for a Multi-Method Research Project
por: Moens, Katrien, et al.
Publicado: (2022)

Constellation Loss: Improving the Efficiency of Deep Metric Learning Loss Functions for the Optimal Embedding of histopathological images
por: Medela, Alfonso, et al.
Publicado: (2020)

Optimization of Diffuser (Pre-Scatterer) Configurations for Slow Extraction Loss Reduction at Electrostatic Septa
por: Goddard, Brennan, et al.
Publicado: (2018)

Cannot write session to /tmp/vufind_sessions/sess_2vmel5oqpce8u62qf71g25svk1