Curator Dashboard

Consortium of laboratory-based and clinical investigators who research etiology, pathogenesis, treatment and cure of type 1 and type 2 diabetes, and their associated microvascular and atherosclerotic complications.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Core which uses stable isotope flux and metabolite profiling to help formulate and test hypotheses about the metabolic consequences of various changes in gene expression and protein function, in order to guide further integrative systems biology analyses of the underlying mechanisms in diabetes, insulin resistance, obesity, and diabetic complications.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Research center that facilitates the research of diabetes and related studies in obesity, metabolism and endocrinology

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Services provided include tissue preparation, embedding and sectioning for electron microscopy, use of electron microscope and photography of thin sections, immunogold staining for electron microscopy, preparation and incubation of samples (cells and tissues) for immunofluorescence microscopy, confocal microscopy and digital imaging.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Core services include consultation, technical support and training and mentoring in clinical and translational research methods that are specifically applicable to diabetes, its complications and related metabolic disorders. Personel provides expertise in first-in-human and mechanistic studies in integrative physiology, in clinical trials of diabetes and obesity, and in application of new technologies.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Core provides information and tools for Einstein and Montefiore investigators from initial study planning stage through analysis and data output. Facility services include: mass spectrometry analysis, including stable isotopes, as well as research-grade determination of lipids, and metabolic markers for human subjects and animal model projects; High-throughput robotics for semi-automated high-quality sample preparation and analysis by immunoassay and liquid chromatography–mass spectrometry (LC/MS); Support for novel developmental projects featuring applications of LC/MS and two-site bead-based assays; Research quality analysis of metabolites for human and animal samples using Olympus AU400 autoanalyzer; Advanced training in analytical chemistry.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Core which provides methodologies, technology and infrastructure to support investigators in the use of human islets for research studies for the Einstein-Mount Sinai Diabetes Research Center. It isolates and prepares human and rodent islets/beta cells and cell lines for investigator-initiated research and generates specific viral vectors (adenovirus and lentivirus) for gene delivery of cDNAs and shRNAs of interest to beta cells and other islet cell types.

• Resource
• SciCrunch
• 10 years ago - submitted by Kristen Jensen

Mix set that contains enzymes and buffers in convenient master mix formulations that are ideally suited for sample preparation for next-generation sequencing, and for preparation of single stranded DNA for use in high density hybridization arrays or for genomic subtraction hybridization methods.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Program that estimates the historical effective population size of a homogenous population. The input for the IBDNe program is the set of identity-by-descent (IBD) segments detected by the IBDseq program.

• Resource
• RRID-Legacy
• 10 years ago - by Anonymous

Database of unannotated short single-read primarily genomic sequences from GenBank including random survey sequences clone-end sequences and exon-trapped sequences. The GSS division of GenBank is similar to the EST division, with the exception that most of the sequences are genomic in origin, rather than cDNA (mRNA). It should be noted that two classes (exon trapped products and gene trapped products) may be derived via a cDNA intermediate. Care should be taken when analyzing sequences from either of these classes, as a splicing event could have occurred and the sequence represented in the record may be interrupted when compared to genomic sequence. The GSS division contains (but is not limited to) the following types of data: * random single pass read genome survey sequences. * cosmid/BAC/YAC end sequences * exon trapped genomic sequences * Alu PCR sequences * transposon-tagged sequences Although dbGSS sequences are incorporated into the GSS Division of GenBank, annotation in dbGSS is more comprehensive and includes detailed information about the contributors, experimental conditions, and genetic map locations.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Database that provides the genome sequence assembly of the International Rice Genome Sequencing Project (IRGSP), manually curated annotation of the sequence, and other genomics information that could be useful for comprehensive understanding of the rice biology. RAP-DB contains a variety of annotation data as follows: clone positions, structures and functions of genes validated by cDNAs, RNA genes detected by massively parallel signature sequencing (MPSS) technology and sequence similarity, flanking sequences of mutant lines, transposable elements, etc. Other annotation data such as Gnomon can be displayed along with those of RAP for comparison.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Gene database for Japonica rice. RiceGE is associated with SIGnAL at the Salk Institute.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Web-based annotation tool for plant chloroplasts and animal mitochondrial genomes. DOGMA allows the use of BLAST searches against a custom database, and conservation of basepairing in the secondary structure of animal mitochondrial tRNAs to identify and annotate genes.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Graphical user interface for multiple sequence alignment and molecular phylogeny. SeaView also generates phylogenetic trees.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Conversion software developed by Illumina that both demultiplexes data and converts BCL files generated by Illumina sequencing systems to standard FASTQ file formats for downstream analysis.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. Software toolkit for the processing of ancient and modern HTS data. PALEOMIX also aids in metagenomic analysis of the extracts from the HTS processing.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Method for mitochondrial baiting and iterative mapping. MITObim assembles novel mitochondrial genomes of non-model organisms directly from total genomic DNA derived NGS reads.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented on January 19, 2022. Tool to annotate core genes in eukaryotic genomes (that was replaced by BUSCO). Its resulting core gene dataset can be used to train a gene finder or to assess the completeness of the genome or annotations., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Gene alignment tool from the EBI which predicts gene structure using similar protein sequences. See also the associated GenomeWise tool.

• Resource
• SciCrunch
• 10 years ago - by Anonymous

Visualization software that allows users to create, browse, and share annotated DNA sequence files from SnapGene.

• Resource
• SciCrunch
• 10 years ago - submitted by Yueling Li