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Connecting omics signatures and revealing biological mechanisms with iLINCS

Nature communications, 2022-08, Vol.13 (1), p.4678-13, Article 4678

2022

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Transforming L1000 profiles to RNA-seq-like profiles with deep learning

BMC bioinformatics, 2022-09, Vol.23 (1), p.1-374, Article 374

2022

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DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules

BMC bioinformatics, 2022-02, Vol.23 (1), p.76-76, Article 76

2022

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eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks

Nucleic acids research, 2018-07, Vol.46 (W1), p.W171-W179

2018

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LINCS Data Portal 2.0: next generation access point for perturbation-response signatures

Nucleic acids research, 2020-01, Vol.48 (D1), p.D431-D439

2020

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Enrichr-KG: bridging enrichment analysis across multiple libraries

Nucleic acids research, 2023-07, Vol.51 (W1), p.W168-W179

2023

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PrismEXP: gene annotation prediction from stratified gene-gene co-expression matrices

PeerJ (San Francisco, CA), 2023-02, Vol.11, p.e14927, Article e14927

2023

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Rummagene: massive mining of gene sets from supporting materials of biomedical research publications

Communications biology, 2024-04, Vol.7 (1), p.482-482, Article 482

2024

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Toxicology knowledge graph for structural birth defects

Communications medicine, 2023-07, Vol.3 (1), p.98-98, Article 98

2023

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Systemic Inflammation Persists the First Year after Mild Traumatic Brain Injury: Results from the Prospective Trondheim Mild Traumatic Brain Injury Study

Journal of neurotrauma, 2020-10, Vol.37 (19), p.2120-2130

2020

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GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery

Nucleic acids research, 2023-07, Vol.51 (W1), p.W213-W224

2023

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Predicting Lyme Disease From Patients' Peripheral Blood Mononuclear Cells Profiled With RNA-Sequencing

Frontiers in immunology, 2021-03, Vol.12, p.636289-636289

2021

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Factors influencing early and late outcome following the Fontan procedure in the current era. The ‘Two Commandments’?

European journal of cardio-thoracic surgery, 2007-03, Vol.31 (3), p.344-353

2007

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cherry map from the inter-specific cross Prunus avium 'Napoleon' x P. nipponica based on microsatellite, gene-specific and isoenzyme markers

Tree genetics & genomes, 2009, Vol.5 (1), p.41-51

2009

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Gene Set Knowledge Discovery with Enrichr

Current protocols, 2021-03, Vol.1 (3), p.e90-n/a

2021

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Effect of retinal and/or extra-retinal information on age in memory-guided saccades

Experimental brain research, 2010-08, Vol.205 (1), p.87-94

2010

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A cherry map from the inter-specific cross Prunus avium ‘Napoleon’ × P. nipponica based on microsatellite, gene-specific and isoenzyme markers

Tree genetics & genomes, 2009, Vol.5 (1), p.41-51

2009

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Identification of molecular markers linked to the mildew resistance gene Pl-d in apple

Theoretical and applied genetics, 2004-12, Vol.110 (1), p.175-181

2004

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Development of an STS map of an interspecific progeny of Malus

Tree genetics & genomes, 2008-07, Vol.4 (3), p.469-479

2008

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Interoperable RNA-Seq analysis in the cloud

Biochimica et biophysica acta. Gene regulatory mechanisms, 2020-06, Vol.1863 (6), p.194521-194521, Article 194521

2020

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SigCom LINCS: data and metadata search engine for a million gene expression signatures

Nucleic acids research, 2022-07, Vol.50 (W1), p.W697-W709

2022

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Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells

Aging cell, 2023-06, Vol.22 (6), p.e13809-n/a

2023

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EnrichrBot: Twitter bot tracking tweets about human genes

Bioinformatics, 2020-06, Vol.36 (12), p.3932-3934

2020

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Appyters: Turning Jupyter Notebooks into data-driven web apps

Patterns (New York, N.Y.), 2021-03, Vol.2 (3), p.100213-100213, Article 100213

2021

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Traumatic Brain Injury and Psychopathic Traits in Justice-Involved Adult Women

Journal of personality disorders, 2023-04, Vol.37 (2), p.195-212

2023

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Connecting omics signatures and revealing biological mechanisms with iLINCS

Transforming L1000 profiles to RNA-seq-like profiles with deep learning

DrugShot: querying biomedical search terms to retrieve prioritized lists of small molecules

eXpression2Kinases (X2K) Web: linking expression signatures to upstream cell signaling networks

LINCS Data Portal 2.0: next generation access point for perturbation-response signatures

Enrichr-KG: bridging enrichment analysis across multiple libraries

PrismEXP: gene annotation prediction from stratified gene-gene co-expression matrices

Rummagene: massive mining of gene sets from supporting materials of biomedical research publications

Toxicology knowledge graph for structural birth defects

Systemic Inflammation Persists the First Year after Mild Traumatic Brain Injury: Results from the Prospective Trondheim Mild Traumatic Brain Injury Study

GeneRanger and TargetRanger: processed gene and protein expression levels across cells and tissues for target discovery

Predicting Lyme Disease From Patients' Peripheral Blood Mononuclear Cells Profiled With RNA-Sequencing

Factors influencing early and late outcome following the Fontan procedure in the current era. The ‘Two Commandments’?

cherry map from the inter-specific cross Prunus avium 'Napoleon' x P. nipponica based on microsatellite, gene-specific and isoenzyme markers

Gene Set Knowledge Discovery with Enrichr

Effect of retinal and/or extra-retinal information on age in memory-guided saccades

A cherry map from the inter-specific cross Prunus avium ‘Napoleon’ × P. nipponica based on microsatellite, gene-specific and isoenzyme markers

Identification of molecular markers linked to the mildew resistance gene Pl-d in apple

Development of an STS map of an interspecific progeny of Malus

Interoperable RNA-Seq analysis in the cloud

SigCom LINCS: data and metadata search engine for a million gene expression signatures

Computational screen to identify potential targets for immunotherapeutic identification and removal of senescence cells

EnrichrBot: Twitter bot tracking tweets about human genes

Appyters: Turning Jupyter Notebooks into data-driven web apps

Traumatic Brain Injury and Psychopathic Traits in Justice-Involved Adult Women

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