Curator Dashboard

Software R package to facilitate proteogenomics studies. Houses functions to create customized protein databases based on user-submitted genomic variants, splice-junctions, fusion genes and manual transcript sequences. Used to generate protein variant sequences based on imported mutations from VCF, MAF and additional files to generate protein-variant database for use in proteogenomics studies.

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• 4 months ago - submitted by Harmen van de Werken

Clinical Research Coordinator Core is available to support and collaborate with investigators and their research teams in all phases of clinical research, providing services that include assisting with the organization, implementation and completion of clinical research studies.

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• 4 months ago - submitted by Edyta Vieth

Facility maintains and administers the chip high performance computing cluster. The chip cluster is built from more than 150 machines featuring Intel CPUs and NVIDIA GPUs.

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• 4 months ago - by Anonymous

Software multi-user server for Jupyter notebooks.

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• 4 months ago - by Anonymous

Automatic Magnetic Bead Cell Isolation System. Benchtop instrument for the purification and extraction of DNA, RNA, proteins, and cells in laboratory settings. It uses magnetic particle technology to handle medium to high throughput processing of 24 or 96 samples per run, providing a more efficient and consistent alternative to manual methods.

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• 4 months ago - by Anonymous

Software R package used to conduct comparative analyses on phylogenetic data sets.

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• 4 months ago - by Anonymous

Software tool that reverts normalised single-cell omics data to raw counts, preserving the integrity of the original measurements and ensuring consistent data processing during integration. Denormalization tool for single-cell transcriptomics data.

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• 4 months ago - submitted by Yin Huang

Core Facility provides infrastructure for high-performance computing and data storage (local and cloud). Services include access and training for use of high-performance computing resources, data analysis and visualization, data integration, statistical analysis, and image analysis.

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• 4 months ago - submitted by Noah Fahlgren

Core has built technology toolbox with access to and application of novel and existing methods in multitude of genomics technologies. These capabilities span bulk, single-cell, spatial, and in situ genomic sequencing methods, all of which are leveraged to generate complementary cross-platform, orthogonally validated datasets to foster novel discovery and advance clinical applicability using human cohorts and model systems

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• 4 months ago - submitted by Edyta Vieth

Core provides team of experts in the characterization of immune profiles and treatment responses across a diverse range of diseases, such as cancer, autoimmunity, allergy, and neuro-immune disorders. Offers equipment in the field for research at Genomic, cellular and proteomic analysis. Develops assays to balance innovation with protocols and operating procedures to ensure data quality and reproducibility.

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• 4 months ago - submitted by Edyta Vieth

Core Facility at the Icahn Genomics Institute (IGI) offers custom-made lipid nanoparticles and RNA technology to develop new therapeutics and nanomedicines.

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• 4 months ago - submitted by Edyta Vieth

Software tool to convert FastA and Eggnog-mapper annotation files to GenBank files containing GO terms and EC number annotations, suitable for metabolic network reconstruction using Pathway Tools. Used for creation of genbank files from Eggnog-mapper annotation outputs.

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• 4 months ago - by Anonymous

Software pipeline as open-source, cloud-optimized workflow for processing spatial transcriptomics data. It supports data derived from spatially barcoded sequencing technologies, including Slide-tags-based single-molecule profiling. The pipeline processes raw sequencing data into spatially resolved gene expression matrices, ensuring accurate alignment, spatial positioning, and quantification.

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• 4 months ago - submitted by Nikelle Mirabito

Core facility offers researchers access to histological services, tissue visualization, slide scanning, digital image analysis, and next-generation tissue microarrays. Our team processes more than 800 projects per year related to patient tissue, patient-related data, clinical studies, and animal models.

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• 4 months ago - submitted by Phillip Thienger

Provides access to collection of human postmortem brain tissues, including fresh, frozen, and formalin-fixed paraffin-embedded (FFPE) specimens, along with detailed clinical histories and neuropathological assessments. Available histology services include processing and embedding, slide sectioning for FFPE and cryosections, immunohistochemistry (IHC), immunofluorescence (IF), and advanced RNA assays such as RNAscope, BaseScope, and miRscope. High-resolution digital slide imaging is performed using the GT450 scanner. CoRE scientists also collaborate with investigators and trainees to support project development, method optimization and troubleshooting, data analysis.

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• 4 months ago - submitted by Edyta Vieth

Software package contains tools to use the BICAN Knowledgebase Data Models.

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• 4 months ago - submitted by Anita Bandrowski

Software tool aimed at data modelers, curators, wrangers, and creators of standards and datamodels. It is aimed at people who prefer to develop these standards using spreadsheet tools over more developer-centric tooling. Human-friendly spreadsheets with machine-actionable models.

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• 4 months ago - submitted by Anita Bandrowski

Software successor to the Reconstruct annotation tool. PyReconstruct runs on all major operating systems, breaks through legacy RAM limitations, features intuitive and collaborative curation system, and employs flexible and dynamic approach to image registration. Used to analyze, display, and publish experimental or connectomics data. Suited for generating ground truth to implement in automated segmentation, outcomes of which can be returned to PyReconstruct for proofreading and quality control.

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• 4 months ago - by Anonymous

Software R package for deconvolving tissue heterogeneity using convex analysis of mixture models.

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• 4 months ago - by Anonymous

Double-beam UV-Vis spectrophotometer used for precision measurements in various scientific and industrial applications, such as quality control, environmental monitoring, and biochemical analysis. Its flashing xenon lamp provides a high-intensity, broadband light source for fast, reliable measurements across a wide wavelength range, and its double-beam design ensures accuracy by measuring both the sample and a reference simultaneously.

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• 4 months ago - by Anonymous