Curator Dashboard

Software package that implements a model of per-position sequencing bias in high-throughput sequencing data using a simple Bayesian network, the structure and parameters of which are trained on a set of aligned reads and a reference genome sequence.

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• SciCrunch
• 13 years ago - by Anonymous

Public university located in Oxford, Ohio.

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• SciCrunch
• 17 years ago - submitted by Andrea Stagg

Database of genes regulated by pain derived from published manuscripts describing results of pain-relevant knockout studies. The database has two levels of exploration: across-gene and within-gene. The across-gene level, the PainGenesdbSelector, is encountered first. All genes in the database can be accessed and sorted by their gene name, protein name, common names and acronyms, or genomic position (by navigating a graphic representation of the mouse genome). The gene and protein names can be selected from an alphabetical list, or by typing a text string into a search box.

• Resource
• SciCrunch
• 16 years ago - by Anonymous

Database that contains measures of gait from 93 patients with idiopathic PD (mean age: 66.3 years; 63% men), and 73 healthy controls (mean age: 66.3 years; 55% men). The database includes the vertical ground reaction force records of subjects as they walked at their usual, self-selected pace for approximately 2 minutes on level ground. Underneath each foot were 8 sensors (Ultraflex Computer Dyno Graphy, Infotronic Inc.) that measure force (in Newtons) as a function of time. The output of each of these 16 sensors has been digitized and recorded at 100 samples per second, and the records also include two signals that reflect the sum of the 8 sensor outputs for each foot. This database also includes demographic information, measures of disease severity (i.e., using the Hoehn & Yahr staging and/or the Unified Parkinson's Disease Rating Scale) and other related measures (available in HTML or xls spreadsheet format). A subset of the database includes measures recorded as subjects performed a second task (serial 7 subtractions) while walking, which shows excerpts of swing time series from a patient with PD and a control subject, under usual walking conditions and when performing serial 7 subtractions. Under usual walking conditions, variability is larger in the patient with PD (Coefficient of Variation = 2.7%), compared to the control subject (CV = 1.3%). Variability increases during dual tasking in the subject with PD (CV = 6.5%), but not in the control subject (CV = 1.2%).

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• SciCrunch
• 16 years ago - by Anonymous

Public university in Ontario, Canada that offers degree programs in the social sciences and engineering at both the undergraduate, graduate, postdoctorate and professional level. The university operates six research centers that focus on disciplines such as neuroscience, computing, human mobility and Southern African research.

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• SciCrunch
• 17 years ago - submitted by Eddy Kim

A toxicology database that focuses on the toxicology of potentially hazardous chemicals. It provides information on human exposure, industrial hygiene, emergency handling procedures, environmental fate, regulatory requirements, nanomaterials, and related areas. The information in HSDB has been assessed by a Scientific Review Panel.

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• SciCrunch
• 17 years ago - by Anonymous

A database of proteins identified by various 2-D PAGE and SDS-PAGE reference maps. Each SWISS-2DPAGE entry contains textual data on one protein, including mapping procedures, physiological and pathological information, experimental data (isoelectric point, molecular weight, amino acid composition, peptide masses) and bibliographical references. In addition to this textual data, SWISS-2DPAGE provides several 2-D PAGE and SDS-PAGE images showing the experimentally determined location of the protein, as well as a theoretical region computed from the sequence protein, indicating where the protein might be found in the gel. Using the database, users can locate these proteins on the 2-D PAGE maps or display the region of a 2-D PAGE map where one might expect to find a protein from UniProtKB/Swiss-Prot.

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• SciCrunch
• 17 years ago - by Anonymous

Private university in Georgetown, Texas. Formed in 1873 from a revival of collegiate charters granted in 1840, Southwestern is the oldest university in Texas.

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• SciCrunch
• 17 years ago - submitted by Davis

Database and encyclopaedic resource of macromolecular complexes found in key model organisms from scientific literature. Data includes protein-only complexes, protein-small molecules, and protein-nucleic acid complexes. The information within the portal is manually curated and available for download.

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• SciCrunch
• 10 years ago - submitted by Kristen Jensen

A stand-alone, open source human cortical meta-analysis and visualization toolbox for MatLab. It projects stereotaxic coordinates to a mean cortical surface by using an anatomical database of 60 young adults to provide multiple mappings of normalized cortical surfaces into MNI space. VAMCA performs the following analyses: # Multi-Fiducial Projection Mapping: Map stereotaxic 3D coordinates to the normalized cortical location for each of 60 database subjects. # Computing Centroid Locations for groups of foci both on a mean cortical surface and in MNI space. # Comparing Two Groups of Foci for differences in location (surface or 3D) of their group centroids and computing the groups' overlap extent using permutation tests. # Detecting Significant Densities of Foci or Density Differences of Two Groups within anatomical ROIs on a mean cortical surface by using Monte Carlo analyses. Coordinate weights allow fixed or random effects type analyses.

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• SciCrunch
• 14 years ago - by Anonymous

Public sea grant and space grant research university in Stony Brook, New York. It is one of four university centers of the State University of New York system.

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• SciCrunch
• 14 years ago - submitted by Stephen Larson

Open-access database comprising more than 3900 annotated experiments describing interactions mediated by protein-interaction domains. The curation effort aims at covering the interactions mediated by the following domains (SH3, SH2, 14-3-3, PDZ, PTB, WW, EVH, VHS, FHA, EH, FF, BRCT, Bromo, Chromo, GYF). The interactions deposited in DOMINO are annotated according to the PSI MI standard and can be easily analyzed in the context of the global protein interaction network as downloaded from major interaction databases like MINT, INTACT, DIP, MIPS/MPACT. It can be searched with a versatile search tool and the interaction networks can be visualized with a convenient graphic display applet that explicitly identifies the domains/sites involved in the interactions.

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• SciCrunch
• 17 years ago - by Anonymous

A collaboration involving developers of science-based ontologies who are establishing a set of principles for ontology development with the goal of creating a suite of orthogonal interoperable reference ontologies in the biomedical domain. In addition to a listing of OBO ontologies, this site provides a statement of the OBO Foundry principles, discussion fora, technical infrastructure, and other services to facilitate ontology development. Feedback is welcome and participation encouraged.

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• SciCrunch
• 16 years ago - by Anonymous

Public research university in Tucson, Arizona that offers undergraduate and graduate degree programs in psychology, audiology, speech pathology, and medicine.

• Organization
• SciCrunch
• 17 years ago - submitted by Timothy Tsui

Core facility that provides academic and industrial researchers from around the world with affordable multi-platform sequencing, library preparation, data analysis and related services.

• Resource
• RRID
• 1 year ago - by Anonymous

Annotea is a W3C LEAD (Live Early Adoption and Demonstration) project under Semantic Web Advanced Development (SWAD). Annotea enhances collaboration via shared metadata based Web annotations, bookmarks, and their combinations. By annotations we mean comments, notes, explanations, or other types of external remarks that can be attached to any Web document or a selected part of the document without actually needing to touch the document. When the user gets the document he or she can also load the annotations attached to it from a selected annotation server or several servers and see what his peer group thinks. Similarly shared bookmarks can be attached to Web documents to help organize them under different topics, to easily find them later, to help find related material and to collaboratively filter bookmarked material. Annotea is part of the Semantic Web efforts. It provides a RDF metadata based extendible framework for rich communication about Web pages while offering a simple annotation and bookmark user interface. The annotation metadata can be stored locally or in one or more annotation servers and presented to the user by a client capable of understanding this metadata and capable of interacting with an annotation server with the HTTP service protocol.

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• SciCrunch
• 17 years ago - by Anonymous

Public research university in Riverside, California. It is one of the 10 campuses of the University of California system.

• Organization
• SciCrunch
• 17 years ago - submitted by Stephen Larson

Software package for nucleic acid folding and hybridization prediction. It has capabilities to predict folding for single-stranded RNA or DNA through a combination of free energy minimization, partition function calculations and stochastic sampling. The program runs on Unix and Linux platforms as well as Mac OS X and Windows.

• Resource
• SciCrunch
• 17 years ago - by Anonymous

COPE is an encyclopedia of cytokines and has fully integrated subdictionaries on Angiogenesis, Apoptosis, Bacterial Modulins, CD Antigens, Cell lines, Eukaryotic cell types, Chemokines, CytokineTopics, Cytokine Concentrations in Body Fluids, Cytokine Inter-Species Reactivities, Dual identity proteins, Hematology, Innate Immunity Defense Proteins, Metalloproteinases, Protein domains, Regulatory peptide factors, Virokines, Viroceptors, and Virulence Factors. Most entries have a description as well as references.

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• SciCrunch
• 16 years ago - by Anonymous

Public university in Duisburg and Essen, North Rhine-Westphalia, Germany.

• Organization
• SciCrunch
• 12 years ago - submitted by Andrea Stagg