Curator Dashboard

Software tool to leverage chimeric and discordant read alignments identified by STAR aligner to predict fusions. Component of Trinity Cancer Transcriptome Analysis Toolkit. Used to identify candidate fusion transcripts supported by Illumina reads. Maps junction reads and spanning reads to reference annotation set.

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• RRID
• 2 years ago - by Anonymous

Core provides multidimensional LC-MS/MS analysis including Protein ID, Proteomics Profiling, Targeted Proteomics and Post Translational Modification analysis. Quantitative proteomic services are provided using label free quantitative proteomic (LFQ) profiling, Tandem mass tagging (TMT) or SILAC approaches. Provides support for macromolecular complexes using Nano ESI.

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• RRID
• 2 years ago - by Anonymous

Software tool for fast and accurate alignment of BS-Seq reads using bwa-mem and 3-letter genome.

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• 2 years ago - by Anonymous

Software tool to process coordinate sorted and indexed BAM or CRAM file containing some form of BS-seq alignments and extract per-base methylation metrics from them. MethylDackel requires indexed fasta file containing reference genome as well.

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• 2 years ago - by Anonymous

Software R package as whole genome DNA methylation analysis pipeline. Used for testing differentially methylated cytosines or regions in whole-genome bisulfite sequencing or reduced representation bisulfite sequencing experiments. Several options exist for either site-specific or sliding window tests, and variance estimation.

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• 2 years ago - by Anonymous

Software analysis pipeline that process 10x Genomics Visium data with brightfield or fluorescence microscope images, allowing users to map whole transcriptome in variety of tissues.

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• 2 years ago - by Anonymous

Desktop application for Windows and MacOS that allows to interactively visualize data generated by the Xenium Analyzer instrument.

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• 2 years ago - by Anonymous

Cell counting chamber. Used to count cells or other particles in suspensions under microscope.

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• 2 years ago - by Anonymous

Software tool to assist in optimizing nucleotide pooling strategies for high-throughput genomic analyses. Used to evaluate nucleotide distribution uniformity across positions and allows users to set customizable red flag thresholds, ensuring optimal results while accommodating variability.

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• 2 years ago - by Anonymous

Core specializes in analysis of nascent transcriptome using PRO-seq and TT-seq NGS methods. Provides services allowing users to submit prepared cells and receive analyzed data. Offers free consultations to help with experimental design, answer questions, and discuss data analysis.

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• 2 years ago - by Anonymous

Software Python library for working with metadata in EBRAINS Knowledge Graph. High-level Python API for EBRAINS Knowledge Graph.

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• 2 years ago - by Anonymous

Core offers mouse behavioral equipment and assays to test motor, cognitive, and affective behaviors. Trained users have access to behavioral testing rooms and procedure room. MBC staff offers consultation, training, and guidance in execution and interpretation of assays.

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• SciCrunch
• 2 years ago - submitted by Edyta Vieth

Joint effort by Harvard Medical School, Dana-Farber Cancer Institute, Boston Childrens Hospital, and Massachusetts General Hospital to provide cryo-EM instrumentation and expertise for Harvard structural biology community. Facility offers consultation and training by staff in specimen preparation, microscope operation, image acquisition, and data analysis.

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• SciCrunch
• 2 years ago - submitted by Edyta Vieth

Software R package as global weighted model for disease ontology enrichment analysis. Used for annotating and enrichment analysis with disease ontology.

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• 2 years ago - submitted by Liang Cheng

Offers increased imaging fields of view to accommodate larger samples in vivo and enables high-resolution imaging of ex vivo samples. Manual x-ray filter assembly provides opportunities to optimize imaging protocols and coupled with the high-resolution, high-speed integrated platform.

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• 2 years ago - by Anonymous

MadicLab Box series uses PSA series microscopic PET technology for small animals. Compact, benchtop body design. Provides advanced technical support for whole-body imaging and in vivo characterization of preclinical small animal models.

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• 2 years ago - by Anonymous

Core specializes in single cell and spatial transcriptomics, and multiomics. Provides custom services, education, training and expertise in multiple high-throughput single cell technologies.

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• 2 years ago - by Anonymous

Service facility offering generation of novel transgenic mouse models using CRISPR/Cas9 gene editing technology. Standard service includes consultation, design, testing, prep, mouse embryo microinjection, and genotyping.

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• SciCrunch
• 2 years ago - submitted by Edyta Vieth

Centralized core specializing in survival surgery, technical procedures, and ultrasound imaging for rats and mice and assistance for surgical procedures in other species.

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• SciCrunch
• 2 years ago - submitted by Edyta Vieth

Offers statistical expertise and services. Provides assistance and collaboration in study design, grant applications, protocol development, data analysis, publication preparation, and statistical education.

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• SciCrunch
• 2 years ago - submitted by Edyta Vieth