Predicting gene regulatory interactions based on spatial gene expression data and deep learning

scientific article published on 17 September 2019

Predicting gene regulatory interactions based on spatial gene expression data and deep learning is …
instance of (P31):
scholarly articleQ13442814

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P8978DBLP publication IDjournals/ploscb/YangFS19
P356DOI10.1371/JOURNAL.PCBI.1007324
P932PMC publication ID6764701
P698PubMed publication ID31527870

P50authorHong-Bin ShenQ88757747
Yang YangQ90135307
Qingwei FangQ90135310
P2860cites workLarge-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profilesQ21145898
Cytoscape: a software environment for integrated models of biomolecular interaction networksQ24515682
Wisdom of crowds for robust gene network inferenceQ24604615
Systematic determination of patterns of gene expression during Drosophila embryogenesisQ24803813
Identification of Drosophila gene products required for phagocytosis of Candida albicansQ24810538
Systematic and integrative analysis of large gene lists using DAVID bioinformatics resourcesQ27860739
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Image-based transcriptomics in thousands of single human cells at single-molecule resolutionQ28299870
Gene regulatory network inference: data integration in dynamic models-a reviewQ28306993
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Odd-skipped genes specify the signaling center that triggers retinogenesis in DrosophilaQ52005360
A modifier screen of ectopic Krüppel activity identifies autosomal Drosophila chromosomal sites and genes required for normal eye developmentQ52164942
AnnoFly: annotating Drosophila embryonic images based on an attention-enhanced RNN modelQ90850362
Gene regulatory networks and the evolution of animal body plansQ29618587
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Comparison of embryonic expression within multigene families using the FlyExpress discovery platform reveals more spatial than temporal divergenceQ30104493
Exploring spatial patterns of gene expression from Fruit Fly embryogenesis on the iPhoneQ30104556
GINI: from ISH images to gene interaction networksQ30550012
Inhibitor of apoptosis 2 and TAK1-binding protein are components of the Drosophila Imd pathwayQ30863456
Image-level and group-level models for Drosophila gene expression pattern annotationQ31145020
Computational methods for discovering gene networks from expression dataQ33464018
Analysis and computational dissection of molecular signature multiplicityQ33587458
Statistical inference of the time-varying structure of gene-regulation networksQ33699289
SPEX2: automated concise extraction of spatial gene expression patterns from Fly embryo ISH imagesQ33896164
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Grainyhead and Zelda compete for binding to the promoters of the earliest-expressed Drosophila genesQ34082089
Learning sparse representations for fruit-fly gene expression pattern image annotation and retrievalQ34278967
The Drosophila gap gene giant regulates ecdysone production through specification of the PTTH-producing neuronsQ34296543
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The axon guidance gene lola is required for programmed cell death in the Drosophila ovaryQ35866968
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Stability-driven nonnegative matrix factorization to interpret spatial gene expression and build local gene networksQ35987459
Global analysis of patterns of gene expression during Drosophila embryogenesisQ36570645
Control of G2/M transition by Drosophila Fos.Q39126158
GATAe regulates intestinal stem cell maintenance and differentiation in Drosophila adult midgutQ40156632
Chameau HAT and DRpd3 HDAC function as antagonistic cofactors of JNK/AP-1-dependent transcription during Drosophila metamorphosis.Q42114679
Mapping gene regulatory networks in Drosophila eye development by large-scale transcriptome perturbations and motif inference.Q42776011
The regulation and function of the helix-loop-helix gene, asense, in Drosophila neural precursors.Q46844230
Drosophila Grainyhead specifies late programmes of neural proliferation by regulating the mitotic activity and Hox-dependent apoptosis of neuroblasts.Q47070109
Regulation of ocellar specification and size by twin of eyeless and homothoraxQ47404067
Identifying Medical Diagnoses and Treatable Diseases by Image-Based Deep Learning.Q50422139
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P4510describes a project that usesCytoscapeQ3699942
P433issue9
P921main subjectdeep learningQ197536
P304page(s)e1007324
P577publication date2019-09-17
P1433published inPLOS Computational BiologyQ2635829
P1476titlePredicting gene regulatory interactions based on spatial gene expression data and deep learning
P478volume15

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Q111150090Biologically relevant transfer learning improves transcription factor binding predictioncites workP2860

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