EchinoBase: An Echinoderm Genomic Database (EchinoBase)
External Resource Description: This web site is the home for genomic information on echinoderms. It either hosts or will soon host sequence and annotation data for species from all of the eleutherozoan echinoderms (sea urchins, sea stars, brittle stars and sea cucumbers). The primary source of sequence data is the ongoing sequencing efforts from Baylor College of Medicine, Human Genome Sequencing Center. Other sources include smaller sequencing projects from individual laboratories. We try to limit as our data sources as much as possible to those archived at Genbank. The information system residing here attempts to provide up-to-date information on genomes, genes and annotations for the use of the experimental scientists. It is our policy to post new sequence information in a timely way as well as insuring the primary datasets we use are archived at Genbank and other public data sites.
Species: Strongylocentrotus purpuratus (purple sea urchin), Patiria miniata (bat star), Lytechinus variegatus (green sea urchin), Allocentrotus fragilis (fragile urchin), Eucidaris tribuloides (slate pencil urchin), Parastichopus parvimensis (warty sea cucumber), Ophiothrix spiculata (spiny brittle stars), Strongylocentrotus franciscanus (red sea urchin), Lytechinus pictus (painted urchin)
Keywords: Echinoderm, Gene, Genome, Transcriptomes, Genomic, Gene Models, Gene Expression, Gene Sequence
NICHD Division/Branch/Center: DER - Developmental Biology and Structural Variation Branch (DBSVB)
The Virtual Human Embryo Project (VHE)
External Resource Description: A digital image database of serially sectioned human embryos from the Carnegie Collection originally developed as a collaboration between embryologist Dr. Raymond Gasser at Louisiana State University Health Science Center (LSUHSC) and the Human Developmental Anatomy Center (HDAC) in Washington D.C. The aim of the project is to increase understanding of human embryology and to encourage study of human embryonic development by providing students and researchers with reliable resources for human embryo morphology. The VHE project has two components: the Digitally Reproduced Embryonic Morphology (DREM) project, and the HEIRLOOM Collection (Human Embryo Imaging and Reconstruction, Library Of Online Media). The Endowment for Human Development (EHD) hosts the VHE databases making the project accessible to everyone and includes a comprehensive cataloging of all the terms used to label the embryos.
Species: Homo sapiens (human)
Keywords: Embryo, Embryonic Human, Development, Embryology, Morphology, Carnegie Stages, 3D Reconstruction
External Resource Type: Database
NICHD Division/Branch/Center: DER - Developmental Biology and Structural Variation Branch (DBSVB)
An Open Video-Based Data-Sharing System for Developmental Science (Databrary)
External Resource Description: Databrary is a data library for researchers to share research data and analytical tools with other investigators. It is a web-based repository for open sharing and preservation of video data and associated metadata in the area of developmental sciences. The project aims to increase the openness in scientific research and dedicated to transforming the culture of developmental science through building a community of researchers empowering them with an unprecedented set of tools for discovery. Databrary is complemented by Datavyu (an open source video-coding software) as well as Labnanny (a data management system to enable data-sharing). Any contributor can share raw digital video files and other data streams.
Species: Homo sapiens (human)
Keywords: Behavior, Development, Data, Sharing, Audio Track, Video, Behavioral Assessment, Psychology, Health, Child Development, Developmental Science
External Resource Type: Database
NICHD Division/Branch/Center: DER - Child Development and Behavior Branch (CDBB)
Child Language Data Exchange System (CHILDES)
External Resource Description: Child language component of TalkBank system. TalkBank is system for sharing and studying conversational interactions. Includes software developed for speech recognition and analysis as well as behavior recognition. Database contains transcript and media data collected from conversations between young children and their playmates and caretakers. Conversations with older children and adults are available from TalkBank. All data are transcribed in CHAT and CA/CHAT formats.
Species: Homo sapiens (human)
Keywords: Social Sciences, Communication Sciences, Corpora, PhonBank, Linguistic Coding, Child, Language, Conversation, Interaction, Data, Psychology, Survey, Transcript
External Resource Type: Database
NICHD Division/Branch/Center: DER - Child Development and Behavior Branch (CDBB)
Extremely Preterm Birth Outcomes Tool (EPBO)
External Resource Description: This Extremely Preterm Birth Outcomes Tool provides the range of outcomes for infants born extremely preterm (22-26 weeks gestational age), based on data from infants born at specific U.S. hospitals between 2006 and 2012. Users enter data for five factors that help estimate the infant outcomes better than using gestational age alone. The outcomes shown include the 10th to 90th percentiles rates for survival, profound neurodevelopment impairment, and moderate-to-severe neurodevelopmental impairment. Please note that the tool describes outcomes for groups of infants with similar characteristics. It does not predict outcomes for any individual infant. [EPBO last updated: 5/1/2020]
Species: Homo sapiens (human)
Keywords: Prematurity, Preterm, Gestational Age, Corrected Age, Birth Weight, Antenatal Steroids, Survival, Neurodevelopment
External Resource Type: Database
NICHD Division/Branch/Center: DER - Pregnancy and Perinatology Branch (PPB)
Ovarian Kaleidoscope Database (OKdb)
External Resource Description: The Ovarian Kaleidoscope Database provides information regarding the biological function, expression pattern, and regulation of genes expressed in the ovary. It also contains information on gene sequences, chromosomal localization, human and murine mutation phenotypes, and biomedical publication links.
Species: Homo sapiens (human), Mus musculus (house mouse), Bos taurus (bovine), Rattus norvegicus (rat), Drosophila melanogaster (fruit fly)
Keywords: Gene, Gene Expression, Chromosome, Ovarian Cell, Molecular Function, Biological Processes, Follicle Stage, Phenotypes, Mutation
External Resource Type: Database
NICHD Division/Branch/Center: DER - Fertility and Infertility Branch (FIB)
Zebrafish Information Network (ZFIN)
External Resource Description: Database of genetic and genomic data for the zebrafish (Danio rerio) as a model organism. ZFIN provides a wide array of expertly curated, organized and cross-referenced zebrafish genetic and genomic data, including genes, alleles, transgenic lines, gene expression, gene function, phenotypes, orthology, human disease models, nomenclature and reagents. The long term goals for ZFIN are: a) to be the community database resource for the laboratory use of zebrafish, b) to develop and support integrated zebrafish genetic, genomic, and developmental information, c) to maintain the definitive reference data sets of zebrafish research information, d) to link this information extensively to corresponding data in other model organism and human databases, e) to facilitate the use of zebrafish as a model for human biology, and f) to serve the needs of the research community. ZIRC is the Zebrafish International Resource Center, an independent NIH-funded facility providing a wide range of zebrafish lines, probes and health services. ZFIN works closely with ZIRC to connect our genetic data with available probes and fish lines.
Species: Danio rerio (zebrafish)
Keywords: Biology, Zoology, Genetics, Ecology, Life Sciences, Genes, Genomics, Research, Anatomy, Developmental Biology, Human Disease Model, Model Organism, Mutant, Phenotype, Physiological System, Zebrafish, Gene Expression, Anatomical Structure, Genotype, Transgenic Lines
External Resource Type: Database
NICHD Division/Branch/Center: DER - Developmental Biology and Structural Variation Branch (DBSVB)
University of Maryland Brain and Tissue Bank (UMB BTB)
External Resource Description: The National Institutes of Health have established and funded a network of six Brain and Tissue Banks referred to as the NIH NeuroBioBank. Each of the banks collects and distributes tissue from donors with neurodevelopmental, neurodegenerative, and psychiatric disorders as well as control donors lacking any clinical brain diagnosis. There are shared tissue collection protocols, an IT portal to process tissue requests, and coordination of toxicology and other services by the banks. The UMB Brain and Tissue Bank is located at the University of Maryland School of Medicine, Department of Pediatrics in Baltimore, Maryland. It was formerly the "NICHD Brain and Tissue Bank for Developmental Disorders" until becoming part of the NIH NeuroBioBank. The mission of the UMB BTB is to advance the research of developmental, neurologic, and psychiatric disorders. The objective of this human tissue repository is to systematically collect, store, and distribute brain and other tissues for research dedicated to the improved understanding, care, and treatment of individuals with these disorders.
Species: Homo sapiens (human)
Keywords: Developmental Disorders, Neurologic Disorders, Movement Disorders, Psychiatric Disorders, Research, Repository, Tissue Samples, Brain Sections
External Resource Type: Biorepository
NICHD Division/Branch/Center: DER - Intellectual and Developmental Disabilities Branch (IDDB)
Xenbase: A Xenopus Model Organism Database (Xenbase)
External Resource Description: Xenbase is the model organism database for Xenopus laevis and X. (Silurana) tropicalis. It contains genomic, development data and community information for Xenopus research. It includes gene expression patterns that incorporate image data from the literature, large scale screens and community submissions.
Species: Xenopus tropicalis (Western clawed frog), Xenopus laevis (African clawed frog)
Keywords: Molecular Euroanatomy Resource, DNA Target, Protein Target, Gene, Genome, Function, Sequence, Orthology, Publication, Gene Expression, Model Organism, Genomics, Development, Annotation, Blast, Development Stage, Publication, in situ Hybridization, Immunohistochemistry, Video Resource, Organism-Related Portal, Experimental Protocol, Organism Supplier, Data Analysis Service, Developmental Stage, Gold Standard
External Resource Type: Biorepository
NICHD Division/Branch/Center: DER - Developmental Biology and Structural Variation Branch (DBSVB)
Gallus Expression in Situ Hybridization Analysis (GEISHA)
External Resource Description: GEISHA is the online repository of in situ hybridization and corresponding metadata for genes expressed in the chicken embryo during the first six days of development. The goals of the GEISHA project are to present whole mount in situ hybridization information and corresponding metadata for genes expressed in the chicken embryos between 0.5 and six days of embryogenesis, and to integrate this information with other genomics resources. In situ hybridization expression information is obtained from three sources: 1) In house high throughput in situ hybridization screening. cDNAs are obtained from several embryonic cDNA libraries, from the University of Delaware and the BBSRC EST repositories, and from individual investigators; 2) Literature curation. Through agreements with most journals, published in situ hybridization images and information is posted on the GEISHA site; 3) Unpublished in situ hybridization information: Laboratories generally publish only a small percentage of their in situ hybridization data. High quality images for which probe identity can be documented are welcome additions to GEISHA.
Species: Gallus gallus (chicken)
Keywords: Gallus Gallus, Genetics, Genomics, Gene Expression, Transcriptomics, Phasianidae, In Situ Hybridization (ISH), mRNA Expression
NICHD Division/Branch/Center: DER - Developmental Biology and Structural Variation Branch (DBSVB)
MGI Mouse Gene Expression Database (GXD)
External Resource Description: The Gene Expression Database (GXD) is a community resource for gene expression information from the laboratory mouse. GXD stores and integrates different types of expression data and makes these data freely available in formats appropriate for comprehensive analysis. There is particular emphasis on endogenous gene expression during mouse development.
Species: Mus musculus (house mouse)
Keywords: Mouse Model, Gene Expression Data, Genome
NICHD Division/Branch/Center: DER - Developmental Biology and Structural Variation Branch (DBSVB)
DS-Connect®: The Down Syndrome Registry (DS Connect)
External Resource Description: DS Connect is a secure, confidential online resource for collecting demographic and basic health information about people with Down syndrome. The registry will help identify those people with Down syndrome who might be eligible to take part in research studies or clinical trials and connect them with the researchers leading those studies. A professional portal is available for investigators who are requesting assistance with recruitment for their research projects, with the DS-Connect registry coordinator sending out study notifications to potential eligible participants who then contact the researchers. There is also a Spanish language version of the registry available on the website. The website is also hosted using a responsive web design and hence accessible by a phone, tablet, iPad etc.
Species: Homo sapiens (human)
Keywords: Down Syndrome, Research, Advocacy, Registry, Survey
External Resource Type: Patient Registry
NICHD Division/Branch/Center: DER - Intellectual and Developmental Disabilities Branch (IDDB)