Curator Dashboard

Software application for classification of heterogeneous brain MRI data. Used for white matter-related classification of heterogeneous brain FLAIR MRIs.

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• 1 year ago - by Anonymous

Software application for BTE RAG implementation for DMDB QA datasets. Provides implementation of BTE-RAG framework, designed specifically for retrieval-augmented question answering (QA) in biomedical contexts. BTE-RAG leverages explicit mechanistic knowledge retrieval from BioThings Explorer (BTE) to significantly enhance the accuracy and reliability of large language models (LLMs) on biomedical benchmarks.

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• 1 year ago - submitted by Janet Joy

Software variant annotation toolkit for GBA gene variants detected from Illumina/Gauchian tool. Command-line tool designed to annotate tsv files generated by the Illumina/Gauchian tool.

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• 1 year ago - submitted by Anand Maurya

Software application as ensemble approach to rank putative causal transcription factors that regulate set of query genes by prediction confidence.

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• 1 year ago - by Anonymous

Collection of software tools for scaffolding and improving modern genome assemblies. Reference-based scaffolder. Used for fast and flexible genome assembly scaffolding and improvement.

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• 1 year ago - by Anonymous

Core provides researchers with access to equipment in three main pipelines: Cell and tissue imaging resources, including microscopes and a slide scanner; Flow cytometry, including analytical flow cytometry and cell sorting; Mass cytometry (CyTOF). Provides consultation services including panel and experiment design, sample preparation tips and technical troubleshooting, training for independent use on select equipment, data acquisition and cell sorting.

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• 1 year ago - by Anonymous

Software methylation analysis pipeline for genome graph. Genome-graph-based DNA methylation analysis using whole genome bisulfite sequencing.

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• 1 year ago - by Anonymous

Consortium to characterise and improve understanding of full spectrum of human genomic variation. HGSVC utilises the latest sequencing technologies to create high-quality maps of human structural variation, developing new tools for SV discovery and analysis. Consortium involves many groups internationally.

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• 1 year ago - by Anonymous

NIH-funded project that aims to engage scientists and bioethicists in creating human pangenome reference and resource that represents global human genomic variation. In the process of creating the pangenome, the HPRC is developing improved technology for genome assembly and a next-generation tool ecosystem that leverages the pangenome for comprehensive analyses.

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• 1 year ago - by Anonymous

Software pipeline to detect Transposable Elements transcripts. Used to identify TE-derived promoters and transcripts using transcriptomic data from multiple sources, including short-read RNA-seq data, long-read RNA-seq data and single cell RNA-seq data.

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• 1 year ago - by Anonymous

Software for simulation of RNA-seq reads. Combines flexible and highly configurable design with detailed simulation of entire library preparation and sequencing pipeline and is designed to include effects of polyA selection and RiboZero for ribosomal depletion, hexamer priming sequence biases, GC-content biases in polymerase chain reaction (PCR) amplification, barcode read errors and errors during PCR amplification.

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• 1 year ago - by Anonymous

Software tool as robust and configurable RNA expression simulator. Configurable and modular program allowing RNA expression emulation.

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• 1 year ago - by Anonymous

Software tool to uncover cellular alternative splicing (AS) heterogeneity and regulatory mechanisms by integrating splicing patterns with gene expression in single-cell RNA-seq (scRNA-seq) data.

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• 1 year ago - submitted by Shang Liu

High-throughput system designed for automated digitization of microscopy slides, primarily for life science research, clinical diagnosis, and geological applications. It excels at creating high-quality virtual slides from brightfield, fluorescence, and polarization microscopy samples.

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• 1 year ago - by Anonymous

Specialized laser ablation system designed for high-resolution, high-speed bioimaging using LA-ICP-MS (Laser Ablation Inductively Coupled Plasma Mass Spectrometry). Built to analyze elemental composition of biological samples, particularly tissues and cells, with focus on speed and precision.

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• 1 year ago - by Anonymous

High-field, preclinical imaging system primarily used for research on small animals like mice and rats. It enables researchers to conduct detailed anatomical and functional studies, including morphological imaging, functional MRI (fMRI), diffusion tensor imaging (DTI), and MR spectroscopy (MRS). The system's high field strength allows for high-resolution imaging, enabling researchers to visualize intricate anatomical details and subtle changes in tissue and organ function.

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• 1 year ago - by Anonymous

Eclipse 50i has optical capabilities, utilizing Nikon CFI60 optics, and stress-free design with solid platform for routine digital imaging applications.

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• 1 year ago - by Anonymous

MRI facility is research-dedicated space that includes 3T Siemens Prisma (whole-body) scanner, an MR-compatible Brain Products system for EEG and psycho-physiological measures, eye tracker, mock scanner, and a MagPro X100 equipped with Localite TMS Navigator for brain stimulation.

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• 1 year ago - by Anonymous

Core for In Vivo and In Vitro metabolic phenotyping. Provides validated in vitro and in vivo tests. Phenotyping applications span from mitochondrial and cellular metabolism to whole body animal physiology. Provides instrument training, experimental design, data analysis. Studies can be performed by staff, but IACUC-approved Animal Use Protocols are also available to help investigators use resources on their own.

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• 1 year ago - submitted by Melissa Kazantzis

Core provides flow cytometry and cell sorting services.

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• 1 year ago - submitted by Melissa Kazantzis