Cargando…

Agile workflow for interactive analysis of mass cytometry data

MOTIVATION: Single-cell proteomics technologies, such as mass cytometry, have enabled characterization of cell-to-cell variation and cell populations at a single-cell resolution. These large amounts of data, require dedicated, interactive tools for translating the data into knowledge. RESULTS: We pr...

Descripción completa

Detalles Bibliográficos
Autores principales:	Casado, Julia, Lehtonen, Oskari, Rantanen, Ville, Kaipio, Katja, Pasquini, Luca, Häkkinen, Antti, Petrucci, Elenora, Hynninen, Johanna, Hietanen, Sakari, Carpén, Olli, Biffoni, Mauro, Färkkilä, Anniina, Hautaniemi, Sampsa
Formato:	Online Artículo Texto
Lenguaje:	English
Publicado:	Oxford University Press 2020
Materias:	Original Papers
Acceso en línea:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8189671/ https://www.ncbi.nlm.nih.gov/pubmed/33135052 http://dx.doi.org/10.1093/bioinformatics/btaa946

Ejemplares similares

qSNE: quadratic rate t-SNE optimizer with automatic parameter tuning for large datasets
por: Häkkinen, Antti, et al.
Publicado: (2020)

Prospective Longitudinal ctDNA Workflow Reveals Clinically Actionable Alterations in Ovarian Cancer
por: Oikkonen, Jaana, et al.
Publicado: (2019)

Author Correction: Virtual clinical trials identify effective combination therapies in ovarian cancer
por: Kozłowska, Emilia, et al.
Publicado: (2020)

Virtual clinical trials identify effective combination therapies in ovarian cancer
por: Kozłowska, Emilia, et al.
Publicado: (2019)

FUNGI: FUsioN Gene Integration toolset
por: Cervera, Alejandra, et al.
Publicado: (2021)

PRISM: recovering cell-type-specific expression profiles from individual composite RNA-seq samples
por: Häkkinen, Antti, et al.
Publicado: (2021)

QuantISH: RNA in situ hybridization image analysis framework for quantifying cell type-specific target RNA expression and variability
por: Jamalzadeh, Sanaz, et al.
Publicado: (2022)

A Subset of Secreted Proteins in Ascites Can Predict Platinum-Free Interval in Ovarian Cancer
por: Carroll, Molly J., et al.
Publicado: (2022)

Anima: Modular Workflow System for Comprehensive Image Data Analysis
por: Rantanen, Ville, et al.
Publicado: (2014)

H&E image analysis pipeline for quantifying morphological features
por: Ariotta, Valeria, et al.
Publicado: (2023)

Longitudinal single-cell RNA-seq analysis reveals stress-promoted chemoresistance in metastatic ovarian cancer
por: Zhang, Kaiyang, et al.
Publicado: (2022)

Co-evolution of matrisome and adaptive adhesion dynamics drives ovarian cancer chemoresistance
por: Pietilä, Elina A., et al.
Publicado: (2021)

Functional Homologous Recombination Assay on FFPE Specimens of Advanced High-Grade Serous Ovarian Cancer Predicts Clinical Outcomes
por: Pikkusaari, Sanna, et al.
Publicado: (2023)

Network-guided identification of cancer-selective combinatorial therapies in ovarian cancer
por: He, Liye, et al.
Publicado: (2021)

SePIA: RNA and small RNA sequence processing, integration, and analysis
por: Icay, Katherine, et al.
Publicado: (2016)

Optimized detection of homologous recombination deficiency improves the prediction of clinical outcomes in cancer
por: Perez-Villatoro, Fernando, et al.
Publicado: (2022)

Extensive mutational ctDNA profiles reflect High-grade serous cancer tumors and reveal emerging mutations at recurrence
por: Marchi, Giovanni, et al.
Publicado: (2023)

Data Integration Workflow for Search of Disease Driving Genes and Genetic Variants
por: Karinen, Sirkku, et al.
Publicado: (2011)

POIBM: batch correction of heterogeneous RNA-seq datasets through latent sample matching
por: Holmström, Susanna, et al.
Publicado: (2022)

Drug screening approach combines epigenetic sensitization with immunochemotherapy in cancer
por: Facciotto, Chiara, et al.
Publicado: (2019)

Aggressive and recurrent ovarian cancers upregulate ephrinA5, a non-canonical effector of EphA2 signaling duality
por: Jukonen, Joonas, et al.
Publicado: (2021)

Agile parallel bioinformatics workflow management using Pwrake
por: Mishima, Hiroyuki, et al.
Publicado: (2011)

Identification of sample-specific regulations using integrative network level analysis
por: Liu, Chengyu, et al.
Publicado: (2015)

A Novel Two-Lipid Signature Is a Strong and Independent Prognostic Factor in Ovarian Cancer
por: Salminen, Liina, et al.
Publicado: (2021)

Characterization of Diaphanous-related formin FMNL2 in human tissues
por: Gardberg, Maria, et al.
Publicado: (2010)

Data integration to prioritize drugs using genomics and curated data
por: Louhimo, Riku, et al.
Publicado: (2016)

The feasibility of [(18)F]EF5-PET/CT to image hypoxia in ovarian tumors: a clinical study
por: Laasik, Maren, et al.
Publicado: (2020)

REG4 Is Highly Expressed in Mucinous Ovarian Cancer: A Potential Novel Serum Biomarker
por: Lehtinen, Laura, et al.
Publicado: (2016)

Effects of Wee1 inhibitor adavosertib on patient-derived high-grade serous ovarian cancer cells are multiple and independent of homologous recombination status
por: Roering, Pia, et al.
Publicado: (2022)

Diagnostic efficiency of whole-body (18)F-FDG PET/MRI, MRI alone, and SUV and ADC values in staging of primary uterine cervical cancer
por: Steiner, Aida, et al.
Publicado: (2021)

The New DBpedia Release Cycle: Increasing Agility and Efficiency in Knowledge Extraction Workflows
por: Hofer, Marvin, et al.
Publicado: (2020)

Quantification of cell death and proliferation of patient-derived ovarian cancer organoids through 3D imaging and image analysis
por: Skorda, Aikaterini, et al.
Publicado: (2023)

Behavior of FDG-avid supradiaphragmatic lymph nodes in PET/CT throughout primary therapy in advanced serous epithelial ovarian cancer: a prospective study
por: Laasik, Maren, et al.
Publicado: (2019)

Rule-based induction method for haplotype comparison and identification of candidate disease loci
por: Karinen, Sirkku, et al.
Publicado: (2012)

Comparison of Affymetrix data normalization methods using 6,926 experiments across five array generations
por: Autio, Reija, et al.
Publicado: (2009)

SciPipe: A workflow library for agile development of complex and dynamic bioinformatics pipelines
por: Lampa, Samuel, et al.
Publicado: (2019)

“Notame”: Workflow for Non-Targeted LC–MS Metabolic Profiling
por: Klåvus, Anton, et al.
Publicado: (2020)

Novel Mad2-targeting miR-493-3p controls mitotic fidelity and cancer cells’ sensitivity to paclitaxel
por: Tambe, Mahesh, et al.
Publicado: (2016)

A platform for efficient establishment and drug-response profiling of high-grade serous ovarian cancer organoids
por: Senkowski, Wojciech, et al.
Publicado: (2023)

Functional Profiling of Precursor MicroRNAs Identifies MicroRNAs Essential for Glioma Proliferation
por: Haapa-Paananen, Saija, et al.
Publicado: (2013)

Cannot write session to /tmp/vufind_sessions/sess_b4fu2t02fo9r43vtrklob4l2fn