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Author Details

Ruben Dries
Boston University School of Medicine
2011
30
19
PMIDPaper TitleJournal TitlePublished Year
36945543Matrix and analysis metadata standards (MAMS) to facilitate harmonization and reproducibility of single-cell data.bioRxiv2023
38077085Giotto Suite: a multi-scale and technology-agnostic spatial multi-omics analysis ecosystem.bioRxiv2023
36945543Matrix and analysis metadata standards (MAMS) to facilitate harmonization and reproducibility of single-cell data.bioRxiv2023
38077085Giotto Suite: a multi-scale and technology-agnostic spatial multi-omics analysis ecosystem.bioRxiv2023
35232959Multi-modal profiling of human fetal liver hematopoietic stem cells reveals the molecular signature of engraftment.Nat Commun2022
35762622Stem cells, cell therapies, and bioengineering in lung biology and disease 2021.Am J Physiol Lung Cell Mol Physiol2022
35384407Analyzing Spatial Transcriptomics Data Using Giotto.Curr Protoc2022
36138189Mesenchymal and adrenergic cell lineage states in neuroblastoma possess distinct immunogenic phenotypes.Nat Cancer2022
36531496The crosstalk within the breast tumor microenvironment in type II diabetes: Implications for cancer disparities.Front Endocrinol (Lausanne)2022
35232959Multi-modal profiling of human fetal liver hematopoietic stem cells reveals the molecular signature of engraftment.Nat Commun2022
35384407Analyzing Spatial Transcriptomics Data Using Giotto.Curr Protoc2022
35762622Stem cells, cell therapies, and bioengineering in lung biology and disease 2021.Am J Physiol Lung Cell Mol Physiol2022
36531496The crosstalk within the breast tumor microenvironment in type II diabetes: Implications for cancer disparities.Front Endocrinol (Lausanne)2022
36138189Mesenchymal and adrenergic cell lineage states in neuroblastoma possess distinct immunogenic phenotypes.Nat Cancer2022
34260934Extracellular domain shedding of the ALK receptor mediates neuroblastoma cell migration.Cell Rep2021
33753926Discovery and resistance mechanism of a selective CDK12 degrader.Nat Chem Biol2021
33685491Giotto: a toolbox for integrative analysis and visualization of spatial expression data.Genome Biol2021
34260934Extracellular domain shedding of the ALK receptor mediates neuroblastoma cell migration.Cell Rep2021
34353350Community-wide hackathons to identify central themes in single-cell multi-omics.Genome Biol2021
34433496Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics.Genome Biol2021
34599004Advances in spatial transcriptomic data analysis.Genome Res2021
33685491Giotto: a toolbox for integrative analysis and visualization of spatial expression data.Genome Biol2021
33753926Discovery and resistance mechanism of a selective CDK12 degrader.Nat Chem Biol2021
34433496Author Correction: Community-wide hackathons to identify central themes in single-cell multi-omics.Genome Biol2021
34599004Advances in spatial transcriptomic data analysis.Genome Res2021
34353350Community-wide hackathons to identify central themes in single-cell multi-omics.Genome Biol2021
31883968CDK7 Inhibition Potentiates Genome Instability Triggering Anti-tumor Immunity in Small Cell Lung Cancer.Cancer Cell2020
31883968CDK7 Inhibition Potentiates Genome Instability Triggering Anti-tumor Immunity in Small Cell Lung Cancer.Cancer Cell2020
31675135Integrative and perturbation-based analysis of the transcriptional dynamics of TGFβ/BMP system components in transition from embryonic stem cells to neural progenitors.Stem Cells2020
31675135Integrative and perturbation-based analysis of the transcriptional dynamics of TGFβ/BMP system components in transition from embryonic stem cells to neural progenitors.Stem Cells2020
30911168Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH.Nature2019
30911168Transcriptome-scale super-resolved imaging in tissues by RNA seqFISH.Nature2019
31299886RESCUE: imputing dropout events in single-cell RNA-sequencing data.BMC Bioinformatics2019
31391581BORIS promotes chromatin regulatory interactions in treatment-resistant cancer cells.Nature2019
30988284CDK12 loss in cancer cells affects DNA damage response genes through premature cleavage and polyadenylation.Nat Commun2019
31299886RESCUE: imputing dropout events in single-cell RNA-sequencing data.BMC Bioinformatics2019
31391581BORIS promotes chromatin regulatory interactions in treatment-resistant cancer cells.Nature2019
30988284CDK12 loss in cancer cells affects DNA damage response genes through premature cleavage and polyadenylation.Nat Commun2019
29101163CDK4/6 Inhibition Augments Antitumor Immunity by Enhancing T-cell Activation.Cancer Discov2018
30371680Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data.Nat Biotechnol2018
29760044NK Cells Mediate Synergistic Antitumor Effects of Combined Inhibition of HDAC6 and BET in a SCLC Preclinical Model.Cancer Res2018
29483136Genomic and Functional Fidelity of Small Cell Lung Cancer Patient-Derived Xenografts.Cancer Discov2018
29101163CDK4/6 Inhibition Augments Antitumor Immunity by Enhancing T-cell Activation.Cancer Discov2018
30371680Identification of spatially associated subpopulations by combining scRNAseq and sequential fluorescence in situ hybridization data.Nat Biotechnol2018
29483136Genomic and Functional Fidelity of Small Cell Lung Cancer Patient-Derived Xenografts.Cancer Discov2018
29760044NK Cells Mediate Synergistic Antitumor Effects of Combined Inhibition of HDAC6 and BET in a SCLC Preclinical Model.Cancer Res2018
27739137Zeb2 Regulates Cell Fate at the Exit from Epiblast State in Mouse Embryonic Stem Cells.Stem Cells2017
28408401Synergistic Immunostimulatory Effects and Therapeutic Benefit of Combined Histone Deacetylase and Bromodomain Inhibition in Non-Small Cell Lung Cancer.Cancer Discov2017
28483607Interleukin-17A Promotes Lung Tumor Progression through Neutrophil Attraction to Tumor Sites and Mediating Resistance to PD-1 Blockade.J Thorac Oncol2017
27739137Zeb2 Regulates Cell Fate at the Exit from Epiblast State in Mouse Embryonic Stem Cells.Stem Cells2017
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Collaborators

Guo-Cheng Yuan
Dana-Farber Cancer Institute, Harvard School of Public Health
Co-authored papers 11
Peter S Hammerman
Novartis Institutes for BioMedical Research
Co-authored papers 5
Nathanael S Gray
Harvard Medical School
Co-authored papers 5
Raphael Bueno
Co-authored papers 3
Qian Zhu
Boston Children's Hospital
Co-authored papers 3
Vera Pancaldi
Universite de Toulouse, Inserm, CNRS, Universite Toulouse III-Paul Sabatier
Co-authored papers 2
Elana J Fertig
Johns Hopkins University School of Medicine
Co-authored papers 2
Elena Ivanova
Dana-Farber Cancer Institute
Co-authored papers 2
Susan Holmes
Stanford University
Co-authored papers 2
Jerome Ritz
Dana-Farber Cancer Institute, Harvard Medical School, Brigham and Women's Hospital
Co-authored papers 2
Matthew E Ritchie
The University of Melbourne
Co-authored papers 2
Genevieve L Stein-O'Brien
Johns Hopkins School of Medicine
Co-authored papers 2
Kris Sankaran
University of Wisconsin - Madison, 1300 University Ave
Co-authored papers 2
Robert T Jones
Co-authored papers 2
Amrit Singh
St. Paul's Hospital, University of British Columbia
Co-authored papers 2
Aedin C Culhane
Dana-Farber Cancer Institute & Harvard School of Public Health
Co-authored papers 2
Arshi Arora
Memorial Sloan Kettering Cancer Center
Co-authored papers 2
Dario Righelli
University of Padova
Co-authored papers 2
Vincent J Carey
Brigham and Women's Hospital, Harvard Medical School
Co-authored papers 2
Casey S Greene
Dartmouth College Geisel School of Medicine, Princeton University, University of Colorado Anschutz Medical Campus, University of Pennsylvania Perelman School of Medicine
Co-authored papers 2
Michael I Love
University of North Carolina at Chapel Hill
Co-authored papers 2
Daniel S Day
Co-authored papers 2
Ayshwarya Subramanian
Broad Institute of MIT and Harvard
Co-authored papers 2
James E Bradner
Co-authored papers 2
Pratheepa Jeganathan
McMaster University
Co-authored papers 2
Joshua D Welch
University of Michigan ann arbor
Co-authored papers 2
Alexis Coullomb
INSERM
Co-authored papers 2
Kim-Anh L?? Cao
University of Melbourne
Co-authored papers 2
Joshua D Campbell
Co-authored papers 2
Ricard Argelaguet
European Bioinformatics Institute (EMBL-EBI)
Co-authored papers 2
Release 1.2