Curator Dashboard

SqueezeCall: Nanopore basecalling using a Squeezeformer network. In SqueezeCall, convolution layers are used to downsample raw signals. A Squeezeformer network is employed to capture global context. Finally, a CTC decoder generates the DNA sequence by a beam search algorithm. Experiments on multiple species further demonstrate the potential of the Squeezeformer-based model to improve basecalling accuracy and its superiority over a recurrent neural network (RNN)-based model and Transformer-based models.

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• 1 year ago - submitted by Zhongxu Zhu

Software application encompassing autonomous feature extraction and feature representation enhancement for PPIs and protein complexes inference. FREEPII establishes feature maps that are consistent with model training, and emphasizes learning the feature representation of proteins rather than the feature representation of PPI, reducing the computational complexity from N^2 to N (N: number of proteins). FREEPII uses protein sequences to expand the information available for calculating data similarity between proteins. Furthermore, it introduces network-level information into the final feature representation to rescale the strength of interactions present in CF-MS data.

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• 1 year ago - submitted by Yu-Hsin Chen

Institutionally available research service unit managed on behalf of the Medical College by the Department of Cell Biology, Neurobiology and Anatomy. OCAM-EM encompasses both Light and Electron Microscopy services.

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• 1 year ago - submitted by Edyta Vieth

Core to advance understanding of mechanism of vascular dysfunction in chronic disease, identify how vascular dysfunction contributes to exercise intolerance, evaluate how exercise training improves vascular dysfunction and exercise intolerance using innovative clinical trial designs.

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• 1 year ago - submitted by Edyta Vieth

The Thermo Scientific™ TSQ™ 9000 GC-MS/MS system is a GC triple quadrupole platform designed to revolutionize laboratory productivity by delivering unprecedented levels of performance, ease-of-use and uptime, with the ultimate goal of facilitating the reduction of costper-sample in the high-throughput environment.

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• 1 year ago - submitted by Zhou Liufu

Intuitive single-button gas chromatography system, that provides ease of use with minimal instrument interaction and full data system control. Offers user-exchangeable, instant connect injector and detector modules and fast oven performance with exceptional retention time stability. Used for detecting wide range of compounds and it is sensitive and user friendly.

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• 1 year ago - submitted by Zhou Liufu

Triple quadrupole mass spectrometry system to study liquid, gaseous or solid samples. Mass analyzer enables absolute quantification of low-concentration metabolites. Designed for complex sample matrices in high-throughput applications. ExtractaBrite or AEI configuration are used to maximize uptime between routine maintenance interventions. The wireless ExtractaBrite ion source is heated throughout and includes the first RF region, commonly the first place susceptible to ion burn. This design ensures high matrix tolerance for high throughput applications. The AEI source is also heated throughout, with RF lenses and benefits from an innate ultra-robustness due to a more tightly focused ion beam, limiting ion burn on the source lenses.

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• 1 year ago - submitted by Zhou Liufu

Software R package for spatial transcriptomics. Deconvolution method that combines cell-type-specific expression information from single-cell RNA sequencing (scRNA-seq) with correlation in cell-type composition across tissue locations.

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• 1 year ago - submitted by Di Chen

Software R package for clustering and enhancing resolution of spatial gene expression experiments. Clusters low-dimensional representation of gene expression matrix, incorporating spatial prior to encourage neighboring spots to cluster together. The method can enhance the resolution of the low-dimensional representation into "sub-spots", for which features such as gene expression or cell type composition can be imputed.

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• 1 year ago - submitted by Di Chen

Test of resource submission

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• 1 year ago - submitted by Jeffrey Grethe

Offers centralized access to critical care clinicians and researchers from diverse disciplines, fostering multidisciplinary collaboration. Supports investigators seeking intramural or extramural partnerships to advance research on sepsis and critical illness. Expands institutional biobanks by incorporating datasets and research specimens from adult and pediatric patients with sepsis. Utilizes immunologic assays and machine learning techniques to investigate different subtypes of sepsis.Develops translational rodent models that are relevant to the study of critical illness.Provides resources to educate clinicians, trainees and patients about septic illness.

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• 1 year ago - by Anonymous

A software tool for analyzing optical imaging data, such as BLI, FLI, and X-ray. It has features like Easy Mode, Kinetics, and Group Image Protocols

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• 1 year ago - submitted by Diego Salas-Benito

Design for chronic electrophysiology implant. Light-weight, can be used in head-fixed or freely moving mice, and is capable of probe recovery for multiple reuses of probes. Includes 3D print designs and step by step instructions for surgery, experimental sessions, and explantation. System includes micro drive, 3D printable Faraday cage, and miniaturized head-fixation system.

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• 1 year ago - submitted by Jensen Palmer

Biotech company dedicated to advancing the frontiers of CRISPR cell and gene therapies through CRISPR technology and expertise. Provides genome engineering solutions and access to CRISPR solutions.CRISPRevolution is a line of products from Synthego and features synthetic guide RNA products designed to accelerate CRISPR/Cas9 and Cpf1 genome engineering research.

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• 1 year ago - submitted by Diego Salas-Benito

General purpose imaging system capable of fluorescence, luminescence, and photographic imaging. Includes x-ray imaging capability.

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• 1 year ago - submitted by Diego Salas-Benito

Software analysis of cell avidity developed by Lumicks

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• 1 year ago - submitted by Diego Salas-Benito

Compact analyzer that fits inside the flow hood for sterile and safe sample handling. Used to measure the avidity between immune cells and their targets, enabling to identify the most potent immunotherapeutic effector cells.

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• 1 year ago - submitted by Diego Salas-Benito

MA900 system include patented micro fluidic chip-based design, comprehensive fluidic controls, and advanced automation that simplifies operation to make sorting less subjective and improve reliability. Provides up to 14 parameters from 4 lasers with possibility to choose from 4 excitation lasers—488 nm, 405 nm, 561 nm, and 638 nm—on two beam spots. Free-form PMTs enable detection of fluorescence signals from each beam spot, allowing detection of up to 12 fluorescence parameters and two scatter parameters.

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• 1 year ago - submitted by Diego Salas-Benito

Flow-based reader, is multiplexing platform from Luminex with fast read time, compatibility with both 96- and 384-well plates, and ease of integration with front-end automation systems for high-throughput applications. Can analyze up to 500 analytes in single sample and is compatible with all R &D System Luminex assays and Quantist Analysis Software.

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• 1 year ago - submitted by Diego Salas-Benito

Live-cell imaging and analysis system. It leverages up to five total fluorescence channels (up to three simultaneously) including long wavelength, low phototoxicity NIR channel that makes it ideal for long-term time-lapse experiments. Offers high-resolution imaging, real-time kinetic monitoring and automated analysis capabilities.

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• 1 year ago - submitted by Diego Salas-Benito