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ctan program  (Bruker Corporation)


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    Structured Review

    Bruker Corporation ctan program
    Ctan Program, supplied by Bruker Corporation, used in various techniques. Bioz Stars score: 99/100, based on 10599 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/programming/Micro-CT/pm42850481-67-13-15
    Average 99 stars, based on 10599 article reviews
    ctan program - by Bioz Stars, 2026-10
    99/100 stars

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    Related Articles

    Micro-CT:

    Article Title: Cartilage-targeted lipid nanoparticle delivery of OSK mRNA suppresses chondrocyte senescence and delays osteoarthritis progression
    Article Snippet: Osteoarthritis (OA) is a degenerative joint disease driven by progressive cartilage deterioration, for which effective disease-modifying therapies are lacking.. Here, we identify chondrocyte senescence as a key pathological feature of OA and develop a targeted gene therapy strategy to promote chondrocyte functional restoration through transient induction of OSK (OCT4, SOX2, and KLF4) factors.. Reanalysis of transcriptomic data revealed enrichment of senescence-associated gene signatures in OA cartilage.

    Article Title: In Vivo Assessment of a Load-Bearing Biphasic Osteotendinous Braided Collagen Scaffold for Reconstruction of Massive Irreparable Rotator Cuff Defects.
    Article Snippet: Massive, irreparable rotator cuff tears affect a significant patient population and often require invasive procedures such as allograft patch augmentation, superior capsule reconstruction, and muscle transfers due to the limited regenerative capacity and inability to reattach the rotator cuff to the humerus.. Current surgical techniques primarily focus on mechanically reinforcing the tendon without promoting biological integration, leading to high retear rates and functional limitations.. This study aimed to evaluate OsTend, a biphasic osteotendinous scaffold designed to span the MIRC defect by bridging the muscle to the bone footprint.

    Software:

    Article Title: Cartilage-targeted lipid nanoparticle delivery of OSK mRNA suppresses chondrocyte senescence and delays osteoarthritis progression
    Article Snippet: Osteoarthritis (OA) is a degenerative joint disease driven by progressive cartilage deterioration, for which effective disease-modifying therapies are lacking.. Here, we identify chondrocyte senescence as a key pathological feature of OA and develop a targeted gene therapy strategy to promote chondrocyte functional restoration through transient induction of OSK (OCT4, SOX2, and KLF4) factors.. Reanalysis of transcriptomic data revealed enrichment of senescence-associated gene signatures in OA cartilage.

    Article Title: An archaeometric study of blue smalt pigment in a mid-renaissance illuminated manuscript: characterisation, production and uses
    Article Snippet: This study focuses on the remarkable identification of a blue smalt pigment in the recently discovered illuminated manuscript BPE LC4, held at the Public Library of Évora, Portugal.. The finding was made during a field survey aimed at clarifying the manuscript’s authorship, origin, date of production, and decoration techniques.. Some of its blue-illuminated capital letters were found to contain smalt, a vivid blue, cobaltrich glass pigment.

    Article Title: Influence of Cobalt Content on the Recrystallization and Grain Growth Kinetics in a Novel Nickel-Based Superalloy
    Article Snippet: VDM Alloy 780 is a newly developed Ni-based superalloy designed for service temperatures up to 750 C. Derived from Alloy 718, it includes 25 wt pct cobalt and a modified Al/Ti ratio to enhance microstructural stability at elevated temperatures while preserving mechanical performance.. This study investigates the influence of lower cobalt contents in this alloy on grain growth (GG), dynamic recrystallization (DRX) and post-dynamic recrystallization (PDRX) kinetics in the absence of secondary phases.. Three compositions were investigated, namely 0, 9 and 25 wt pct Co, with cobalt added at the expense of nickel.

    Article Title: Effect of Material Type and Printing Orientation on the Marginal and Internal Fit of Additively Manufactured Definitive Resin Crowns: A Micro-Computed Tomography Study.
    Article Snippet: This is a PDF of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability.. This version will undergo additional copyediting, typesetting and review before it is published in its final form.. As such, this version is no longer the Accepted Manuscript, but it is not yet the definitive Version of Record; we are providing this early version to give early visibility of the article.

    Article Title: OXR1 is a dual redox-mitochondrial checkpoint governing osteoclast differentiation and bone loss in an osteoporosis mouse model.
    Article Snippet: .. Reconstruction of the acquired images was performed with CTvox software (Bruker microCT, Kontich, Belgium), utilizing a ring artifact correction of 7, a smoothing factor of 2, and a beam hardening correction of 40%. ..

    Article Title: Interfacial magnetization enhancement and the perpendicularly magnetized component in Fe16N2 thin films
    Article Snippet: A detailed study of depth-resolved magnetization and microstructure of Fe16N2 thin films on MgO (001) and MgAl2O4 (001) substrates and Fe and Cr seed layers is presented.. Two aspects of the magnetic properties of Fe16N2 thin films are discussed.. First, magnetization enhancement at the interface is observed.

    Article Title: In Vivo Assessment of a Load-Bearing Biphasic Osteotendinous Braided Collagen Scaffold for Reconstruction of Massive Irreparable Rotator Cuff Defects.
    Article Snippet: Massive, irreparable rotator cuff tears affect a significant patient population and often require invasive procedures such as allograft patch augmentation, superior capsule reconstruction, and muscle transfers due to the limited regenerative capacity and inability to reattach the rotator cuff to the humerus.. Current surgical techniques primarily focus on mechanically reinforcing the tendon without promoting biological integration, leading to high retear rates and functional limitations.. This study aimed to evaluate OsTend, a biphasic osteotendinous scaffold designed to span the MIRC defect by bridging the muscle to the bone footprint.

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Analysis:

    Article Title: An archaeometric study of blue smalt pigment in a mid-renaissance illuminated manuscript: characterisation, production and uses
    Article Snippet: This study focuses on the remarkable identification of a blue smalt pigment in the recently discovered illuminated manuscript BPE LC4, held at the Public Library of Évora, Portugal.. The finding was made during a field survey aimed at clarifying the manuscript’s authorship, origin, date of production, and decoration techniques.. Some of its blue-illuminated capital letters were found to contain smalt, a vivid blue, cobaltrich glass pigment.

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Energy Dispersive X-Ray:

    Article Title: An archaeometric study of blue smalt pigment in a mid-renaissance illuminated manuscript: characterisation, production and uses
    Article Snippet: This study focuses on the remarkable identification of a blue smalt pigment in the recently discovered illuminated manuscript BPE LC4, held at the Public Library of Évora, Portugal.. The finding was made during a field survey aimed at clarifying the manuscript’s authorship, origin, date of production, and decoration techniques.. Some of its blue-illuminated capital letters were found to contain smalt, a vivid blue, cobaltrich glass pigment.

    In Situ:

    Article Title: An archaeometric study of blue smalt pigment in a mid-renaissance illuminated manuscript: characterisation, production and uses
    Article Snippet: This study focuses on the remarkable identification of a blue smalt pigment in the recently discovered illuminated manuscript BPE LC4, held at the Public Library of Évora, Portugal.. The finding was made during a field survey aimed at clarifying the manuscript’s authorship, origin, date of production, and decoration techniques.. Some of its blue-illuminated capital letters were found to contain smalt, a vivid blue, cobaltrich glass pigment.

    Activation Assay:

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Multiplex Assay:

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Immunohistochemistry:

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Tissue:

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Next-Generation Sequencing:

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Single Cell:

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..

    Spatial Transcriptomics:

    Article Title: Prefibrotic bone marrow microenvironment is a hallmark of clonal hematopoiesis.
    Article Snippet: .. Data analysis Coculture, T-cell and monocyte activation assay: FlowJo version 10 (BD) Multiplex IHC and spatial proximity: inForm Tissue Finder Software (Akoya Biosciences), QuPath 0.7.0, sf 1.1.1, fields 17.3 microCT: CT-Analyzer software (Bruker) Main coding language: R version 4.4.0 Statistics: stats package version 4.4.0 Next Generation Sequencing: smMIP-tools (github.com/abelson-lab) WES Analysis: Sarek pipeline 3.2.3 Single-cell Analysis: 10x Genomics Cell Ranger version (3'10X: 8.0.1; 5'10X: 9.0.1), Seurat version 5.1.0, scDblFinder version 1.18.0, Souporcell (github.com/wheaton5), Harmony version 1.2.3, AUCell version 1.26.0, presto package version 1.0.0, pySCENIC 0.12.1 Pseudobulk DGE and GSEA: DESeq2 version 1.44.0, fgsea version 1.30.0 Cell Communication: CellChat version 2.2.0 RNA velocity inference: kb-python v0.29.3, cell2fate Spatial transcriptomics: Xenium Explorer 4.0.0, QuPath 0.7.0, Seurat version 5.1.0, AUCell version 1.26.0, SingleR 2.8.0, sf 1.0.21, hoodscanR 1.4.0, imcRtools 1.12.0, DESeq2 version 1.44.0, fgsea version 1.30.0 For manuscripts utilizing custom algorithms or software that are central to the research but not yet described in published literature, software must be made available to editors and reviewers. ..



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