Curator Dashboard

The purpose of this document is to give the exact definitions of the MORGAM cohorts and to describe their basic characteristics and data collection procedures, such as the follow-up procedures, the disease end-points recorded and diagnostic procedures. The definition and selection criteria for MORGAM cohort are described in section Definition and selection of cohorts of the MORGAM Manual. For convention, each cohort is assigned appropriate name and code number which is given in Table 1. The baseline characteristics of the MORGAM Cohorts are summarized in Table 2. An overall summary of MORGAM Cohorts along with the objectives of the Project has been published elsewhere [1]. Sponsor. The research was supported by the GenomEUtwin Project grant from the European Commission under the programme `Quality of Life and Management of the Living Resources'' of 5th Framework Programme (no. QLG2-CT-2002-01254) and by the Academy of Finland via its grant number 53646.

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• SciCrunch
• 17 years ago - by Anonymous

Software that determines genotypes for microsatellite repeats in high-throughput sequencing data.

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• SciCrunch
• 13 years ago - by Anonymous

Genomic Analysis Software designed to match the accuracy of the next generation 5500 Genetic Analyzers with Exact Call Chemistry (ECC).

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• SciCrunch
• 13 years ago - by Anonymous

Cube-DB is a database of pre-evaluated conservation and specialization scores for residues in paralogous proteins belonging to multi-member families of human proteins. Protein family classification follows (largely) the classification suggested by HUGO Gene Nomenclature Committee. Sets of orhtologous protein sequences were generated by mutual-best-hit strategy using full vertebrate genomes available in Ensembl. The scores, described on documentation page, are assigned to each individual residue in a protein, and presented in the form of a table (html or downloadable xls formats) and mapped, when appropriate, onto the related structure (Jmol, Pymol, Chimera).

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• SciCrunch
• 15 years ago - by Anonymous

Software functions for reading aCGH data from image analysis output files and clone information files, creation of aCGH S3 objects for storing these data. Basic methods for accessing/replacing, subsetting, printing and plotting aCGH objects.

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• SciCrunch
• 13 years ago - by Anonymous

A manually curated database of protein-protein interactions for Death Domain Superfamily. The Death Domain Database provides a detailed summary of PPI data, which fits into 3 categories: interaction, characterization, and functional role. Users can find in-depth information specified in the literature on relevant analytical methods, structural information. The DD superfamily currently comprises four subfamilies: * Death domain (DD) subfamily * Death effector domain (DED) subfamily * Caspase recruitment domain (CARD) subfamily * Pyrin domain (PYD) subfamily

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• SciCrunch
• 15 years ago - by Anonymous

Software for a normalization scheme that corrects nucleotide composition bias, mappability variations and differential local DNA structural effects in deep sequencing data.

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• SciCrunch
• 13 years ago - by Anonymous

EMS is a freely available suite of Matlab functions and subroutines (with some externally compiled C routines) for fully-automated multi-spectral classification of brain tissues in Magnetic Resonance (MR) images. It uses a model based approach (including an explicit model for MR bias fields) in which all the model parameters are automatically estimated for each individual scan. This enables it to process large amounts of data from normal subjects and subjects suffering from Multiple Sclerosis without need for user intervention or preceeding manual training phase.

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• SciCrunch
• 17 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE, documented September 13, 2016. A searchable biotechnology database e-books with information on more than 9000 monoclonal antibodies. This database has antibodies produced for the diagnosis and therapy of human cancer, Alzheimer's disease, AIDS, and other diseases as well as for biomarker and proteomics research. Information such as antibody name, species, type, characteristics, antigen characteristics, and developer or distributor of antibody as well as mentions in journals, patents, abstracts and reports up until 2012 are included.

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• SciCrunch
• 13 years ago - by Anonymous

The Oryza sativa database displays sequence information resulting from the research of the Centre de cooperation internationale en recherche agronomique pour le developpement. It also includes related molecular data from external rice molecular resources (cDNA full length, Gene, EST, Markers, Expression data, etc.). Genome Browser (Gbrowse), a Web-based application for displaying genomic annotations and other features, is the core of our database. The reference annotation layer consists in the 12 rice pseudomolecules released by the TIGR (Version 5.0, January 2007). All the data are superposed as annotations layers and positioned with respect to these pseudomolecules. We developed a set of tools around GBrowse to retrieve as exhaustively as possible information related to queries with several starting points. These tools allow a molecular geneticist to readily find insertion lines (T-DNA, Tos17, Ds) in genes of interest and to retrieve all the associated annotations related to these sequences.

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• SciCrunch
• 17 years ago - by Anonymous

A CUDA C based toolkit which provides a GPU based implementation of the spherical model forward solution for the 306 channel Elekta Neuromag MEG system and the EEG. The 1-Sphere forward solution for the MEG and the 4-Sphere forward solution for the EEG is implemented in CUDA C and an accelerated solution is obtained using the NVIDIA GPU when the solution is calculated for a large number of dipoles (on the order of 15000 and above) and sensor location. Speedup by a factor of 22 and 32 is obtained for the EEG and MEG solution respectively when compared to the fastest CPU implementation available in the public domain. The complete source code and pre-compiled binaries are also made available via an open source license (GPL Version 3). A CUDA enabled NVIDIA graphics card is required to use the software.

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• SciCrunch
• 13 years ago - by Anonymous

Not yet vetted by NIF curator

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• 16 years ago - by Anonymous

Performs ungapped alignment of SOLiD (color space) sequencing reads against reference sequences.

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• 13 years ago - by Anonymous

In animals, RNA binding proteins (RBPs) and microRNAs (miRNAs) post-transcriptionally regulate the expression of virtually all genes by binding to RNA. Recent advances in experimental and computational methods facilitate transcriptome-wide mapping of these interactions. It is thought that the combinatorial action of RBPs and miRNAs on target mRNAs form a post-transcriptional regulatory code. We provide a database that supports the quest for deciphering this regulatory code. Within doRiNA, we are systematically curating, storing and integrating binding site data for RBPs and miRNAs. Users are free to take a target (mRNA) or regulator (RBP and/or miRNA) centric view on the data. We have implemented a database framework with short query response times for complex searches (e.g. asking for all targets of a particular combination of regulators). All search results can be browsed, inspected and analyzed in conjunction with a huge selection of other genome-wide data, because our database is directly linked to a local copy of the UCSC genome browser. At the time of writing, doRiNA encompasses RBP data for the human, mouse and worm genomes. For computational miRNA target site predictions, we provide an update of PicTar predictions.

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• 15 years ago - by Anonymous

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 31,2023.

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• 16 years ago - by Anonymous

Software designed as an open platform that allows users to incorporate as many datasets (concepts) as possible to annotate the input gene list, as long as these datasets are prepared in bigwig, BED, BAM/SAM formats.

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• SciCrunch
• 13 years ago - by Anonymous

Public research university in San Marcos, Texas. Established in 1899 as the Southwest Texas State Normal School, it opened in 1903 to 303 students.

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• SciCrunch
• 17 years ago - submitted by Stephen Larson

Blog including established profound know-how and proprietary protocols to cover a broad range of applications.

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• SciCrunch
• 13 years ago - by Anonymous

A model-based statistical methods for base calling in Illumina''s next-generation sequencing platforms.

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• 13 years ago - by Anonymous

This resource is out of service. Documented on February 23,2021. Software for de novo metagenomic assembly program for shotgun DNA reads., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

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• SciCrunch
• 13 years ago - by Anonymous