Curator Dashboard

Core provides proteomics services including Protein identifications, PTM analysis, quantitative proteomics (label-based and label-free).

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• SciCrunch
• 1 month ago - submitted by Edyta Vieth

Transgenic Facility provides services: CRISPR reagent design, Zygote and Cell Microinjection,Embryo Transfer, Embryo/Sperm Cryopreservation, IVF/Embryo thaw for line recovery and importation.

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• SciCrunch
• 1 month ago - submitted by Edyta Vieth

Core at BIDMC is a physical biorepository of deeply phenotyped human specimens that are linked to clinical diagnoses, a digital databank of omics and histological profiling generated from stored and annotated samples, and a virtual catalogue interface that will facilitate collaborations with the aim to catalyze innovative biomedical research and discovery. Goal of the BioDataBank Core is to build a biobank of Beth Israel Deaconess Medical Center (BIDMC)/BILH patient biospecimens & Omics data from our four Translational Research Hubs that are linked to clinical data for biomedical research directed towards advancing precision medicine. We will diversify the targeted biobank populations by engaging and collaborating with Beth Israel Lahey Health (BILH)-associated community health centers.

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• SciCrunch
• 1 month ago - submitted by Edyta Vieth

Core supports the BILH i2b2 system, which enables investigators to query and download clinical data on more than 7 million patients across all BILH hospitals.

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• SciCrunch
• 1 month ago - submitted by Edyta Vieth

Core works in conjunction with Harvard Catalyst to provide statistical and epidemiological support for investigators throughout Beth Israel Deaconess Medical Center.

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• SciCrunch
• 1 month ago - submitted by Edyta Vieth

Software R package for the statistical identification and removal of contaminant sequences in marker-gene (e.g. 16S rRNA) and metagenomics sequencing data. Implements frequency- and prevalence-based contaminant identification methods. Used for simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data.

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• RRID
• 1 month ago - by Anonymous

Software R package provides ggplot2 extension that colors scatter plot points by their neighbor count. It solves overplotting in large datasets by showing data density through color while keeping individual points and outliers visible.

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• RRID
• 1 month ago - by Anonymous

Software R package for single-cell data visualization (including RNA, spatial, ATAC, etc.), with the goal of allowing anyone to explore their data. Single cell data explorer.

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• RRID
• 1 month ago - submitted by Shalini Indugula

Web application to map single-cell RNA data into AI foundation model spaces. Lets search millions of reference cells and view cell types locally without uploading private data or needing powerful cloud servers. Using ONNX model deployment and compressed IVFPQ indexing, it annotates local datasets against a 23-million-cell reference without server computation, installation, or data upload, and shares embeddings as lightweight files, enabling private, interactive, and collaborative single-cell analysis.

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• RRID
• 1 month ago - submitted by Robert Currie

Software R package that implements meta-analysis methods for microbial community profiles. It provides standardized statistical workflows for: a) covariate-controlled batch and study effect adjustment, b) meta-analytic differential abundance testing, and c) unsupervised population structure discovery (both discrete, cluster-based, and continuous gradients). Used to normalize, combine, and analyze multiple independent microbiome datasets using taxonomic or functional abundance profiles.

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• RRID
• 1 month ago - by Anonymous

Software R package for removing background sequencing contamination from metabarcoding datasets using blank control samples. Used for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing.

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• RRID
• 1 month ago - by Anonymous

Software application as structural pharmacology workbench that reports negative result for cognition-related CNS targets. It runs real structure prediction, computes real chemical and physicochemical properties, validates every record against a contract, and attaches a provenance record to every value.

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• RRID
• 1 month ago - submitted by Seung Jung

Web citation tool that generates formatted references in citation styles (APA, MLA, Chicago, Vancouver, ABNT and others) and verifies that references correspond to real, findable works by checking them against scholarly databases including OpenAlex, Crossref, PubMed, Europe PMC and arXiv. It includes a reference checker for detecting unverifiable citations in bibliographies, BibTeX and RIS import and export, and browser extensions.

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• SciCrunch
• 1 month ago - by Anonymous

Software application as C++ drop-in replacement of FastQC to assess the quality of sequence read data. Used for fast and experiment aware quality control for next-generation sequencing data.

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• RRID
• 1 month ago - submitted by Joachim Wolff

Open, versioned interactive research and planning atlas of adult-cardiology access across all 3,144 county and county-equivalent areas in the 50 states and DC. Version 0.2.0 combines pinned public CMS, Census/ACS, HUD-USPS, CDC PLACES, USDA RUCC, and HRSA HPSA sources to present qualifying cardiology-location counts, distance estimates, rurality, Critical Access Hospitals, shortage status, and demographic context. It contains no patient-level data and is not a provider directory or clinical decision system. Interactive US map visualizing cardiology access gaps. Companion to the HEARTLAND Protocol.

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• SciCrunch
• 1 month ago - by Anonymous

Software post sequencing QC tool for Oxford Nanopore sequencers.

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• RRID
• 1 month ago - by Anonymous

Browser based platform for acoustic analysis of voice recordings, intended for speech-language pathologists, voice clinicians, and researchers. It computes validated multiparametric acoustic indices — including the Acoustic Voice Quality Index (AVQI), Acoustic Breathiness Index (ABI), smoothed cepstral peak prominence (CPPS), and glottal-to-noise excitation ratio (GNE) — from sustained-vowel and connected-speech samples, using Praat algorithms via the Parselmouth interface. Audio is processed in memory and is not stored on the server. The interface is available in English, Brazilian, Portuguese, and Spanish.

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• RRID
• 1 month ago - by Anonymous

Principal repository for economic, population, and social research data in the UK. As hosts of the largest trusted digital archive of its kind, our expertise in the collection, preservation, and dissemination of quality data is the culmination of nearly sixty years of sustained investment by the Economic and Social Research Council (ESRC) in the UK’s research data infrastructure.

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• RRID
• 1 month ago - submitted by Oliver Parkes

Desktop software for processing, fitting, and analysing isothermal titration calorimetry (ITC) data. It imports raw data from MicroCal, TA Instruments/NanoAnalyze, and PEAQ ITC project files, as well as integrated heat data and FT-ITC project files. The software supports baseline correction, injection integration, interaction-model fitting, global analysis, uncertainty estimation, advanced thermodynamic analyses, and publication-figure export on macOS, Windows, and Linux. Desktop application for analysis of ITC data.

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• RRID
• 1 month ago - submitted by Frederik Theisen

Core provides consultation, educational trainings, quality control, select library preparation, and sequencing services. Core operates Illumina and Oxford Nanopore Technologies instruments.

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• SciCrunch
• 1 month ago - submitted by Edyta Vieth