Curator Dashboard

Software R package to correct systematic errors in nanopore sequencing reads of gene libraries. Retrieves true consensus sequences of variants identified by barcode, needing only few reads per variant.

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• SciCrunch
• 4 years ago - by Anonymous

A reference ontology that models the life cycle stage details of various parasites, including Trypanosoma sp., Leishmania major, and Plasmodium sp., etc. In addition to life cycle stages, the ontology also models necessary contextual details, such as host information, vector information, and anatomical location. OPL is based on the Basic Formal Ontology (BFO) and follows the rules set by the OBO Foundry consortium.

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• SciCrunch
• 13 years ago - by Anonymous

Software R package implementation of cumulative link models also known as ordered regression models, proportional odds models, proportional hazards models for grouped survival times and ordered logit/probit models.

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• RRID
• 4 years ago - by Anonymous

An automated analysis platform for metagenomes providing quantitative insights into microbial populations based on sequence data. The server primarily provides upload, quality control, automated annotation and analysis for prokaryotic metagenomic shotgun samples.

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• SciCrunch
• 13 years ago - by Anonymous

Core laboratory for nucleic acid sequencing and bioinformatics. Mission includes research support, education, and training.Services encompass range of genomic techniques and applications, sequencing technologies, and bioinformatics analyses. GGBC operates multiple platforms for short-, long-, and single-molecule sequencing reads (i.e., Illumina MiSeq and NextSeq, PacBio Sequel, and Oxford Nanopore MinIon). We also write letters of support (LOS) to offer our capabilities and expertise for grant applications submitted to funding agencies.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Project aimed at revolutionizing understanding of human brain, to show how individual cells and complex neural circuits interact, enable rapid progress in development of new technologies and data analysis tools to treat and prevent brain disorders. BRAIN Initiative encourages collaborations between neurobiologists and scientists from disciplines such as statistics, physics, mathematics, engineering, and computer and information sciences. Institutes and centers contributing to NIH BRAIN Initiative support those research efforts.

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• SciCrunch
• 14 years ago - by Anonymous

Open online platform for single cell RNA-seq. Provides data management and analytics. Used to analyze public and private datasets and you can choose between several best practices workflows and browse existing analyses.

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• RRID
• 4 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 27, 2023. Core provides services: RT PCR service, Gene expression profiling service, Proteomics analysis service, Bioinformatics and Systems Biology analyses, Next Generation Sequencing Service, Affymetrix Human and Mouse Gene 2.0 ST Arrays and 2.1 ST Arrayplates. Core proteomics facility for the Dana-Farber/Harvard Cancer Center. Workflows and algorithms for analysis of next-generation sequencing data including RNA-Seq, ChIP-Seq, Epigenetics-Seq and DNA seq, Comprehensive workflow for analysis of Microbiome sequencing data, Integrated systems biology analysis of transcriptome, miRNA, epigenome, metabolomics and proteomics data. Pipelines: MALDI Tissue imaging and targeted quantitative proteomics.

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• SciCrunch
• 13 years ago - by Anonymous

Core to develop and utilize proteomics techniques to answer both basic and translational scientific questions.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Core facility that provides the following services: Advanced ultrasound imaging. The mission of the Advanced Fetal Care Center (AFCC) is to provide the finest diagnosis and care for a mother carrying a baby with a congenital anomaly. For these families, our center offers entry to a continuum of care and support that extends throughout childhood--from prenatal diagnosis and counseling, through treatment and long-term follow-up. On rare occasions, our team will recommend and perform intervention during fetal life. Our physicians, who represent all pediatric subspecialty areas, work with a wide range of babies with anomalies. Together, they have developed ground-breaking procedures in fetal medicine and surgery.

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• SciCrunch
• 13 years ago - by Anonymous

Facility is ISO Class 5 cleanroom that specializes in advanced lithographic processing of hard and soft materials. Facility is focused on supporting basic science, applied research, research and development, and prototype production using micro and nanofabrication.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Core facility that provides the following services: Separation of plasma and serum from blood samples, Mononuclear cell counting and isolation, DNA isolation, 24 hour urine volume and aliquoting, Research specimen processing, Bone marrow aspiration and blood fixation, Research specimen storage.

The Clinical Research Laboratory (CRL) utilizes protocol-driven standard operating procedures for the processing of pharmacokinetics, pharmacodynamic, and biomarker samples. This includes the processing, storage, and tracking of all research specimens to ensure the successful completion of clinical trials associated with patient treatment. The CRL is dedicated to the highest standards of specimen handling to maintain the integrity of data procurement and analysis for clinical trials.

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• SciCrunch
• 13 years ago - by Anonymous

Data and software repository from CalTech.

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• SciCrunch
• 7 years ago - submitted by Anita Bandrowski

There is a growing need for animal models to carry out in vivo developmental and regenerative medicine studies of human cells, tissues and organs. The Humanized Neonatal Mouse Center (HNMC) was created to accelerate research in the stem cell field by providing humanized mouse models to study human stem cell engraftment and differentiation in regenerative medicine. We have over 4 years of experience in constructing different types of humanized mouse models, including neonatal heart, lung and kidney injury models. We have extensive experience in hematopoietic stem cell reconstruction. It is our goal at HNMC to facilitate collaborative research in human stem cell biology, where physiologically relevant microenvironments (niches) may be created in vivo to study human stem cell fate and function under experimental settings where disease, damage or degenerative conditions can be controlled. We can provide customized humanized mouse models to the HSCI research community, to collaborate on research studies of common interest, and to advance the general use of these models for a broad range of translational and preclinical studies.

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• SciCrunch
• 13 years ago - by Anonymous

Provides full service facility for design and fabrication of specialized scientific glassware as well as repairs and modifications of existing glassware.

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• SciCrunch
• 4 years ago - submitted by Edyta Vieth

Core facility that provides the following services: Breeding pair service, Mouse Phenotyping Services.

This resource provides to MGH investigators a local source of breeding pairs of the 22 chromosome substitution strains (CSS)* of mice and access to basic phenotyping equipment for mapping of simple or complex traits, to promote the use of genetic mouse-based strategies in basic and clinical research. The CSS Resource comprises 22 mouse lines, each homozygous for a single A/J chromosome (Chr 1-19, X or Y and mitochondria) on a genetic background that is otherwise C57BL/J that were generated by Dr. Joseph Nadeau (Case Western Reserve University) and his colleagues. The CSS mice are available from The Jackson Laboratories. However, to save time and money, the MGH CSS Resource maintains CSS breeding colonies that are housed in the Simches-8 barrier facility, adjacent to a procedure room that will have equipment for basic standardized phenotyping, including behavioral and metabolic measurements.

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• SciCrunch
• 13 years ago - by Anonymous

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• NIF
• 4 years ago - by Anonymous

An ontology based on the papers Toward an Ontological Treatment of Disease and Diagnosis and On Carcinomas and Other Pathological Entities to address some of the issues raised at the Workshop on Ontology of Diseases (Dallas, TX) and the Signs, Symptoms, and Findings Workshop (Milan, Italy). OGMS was formerly called the clinical phenotype ontology. Terms from OGMS hang from the Basic Formal Ontology.

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• SciCrunch
• 13 years ago - by Anonymous

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• NIF
• 4 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 14,2026. Database to access gene information through common names and allows identification of homologs and paralogs for a given gene. This publicly available tool leverages public sequence data, gene metadata information, and other publicly available data to calculate and display orthologous and paralogous gene relationships for all genes from several species, including yeasts, insects, worms, vertebrates, mammals, and primates such as humans.

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• SciCrunch
• 14 years ago - by Anonymous