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Bgee
Bgee is a biological database, database maintained by the SIB Swiss Institute of Bioinformatics and the University of Lausanne for retrieval and comparison of gene expression patterns from RNA-Seq, scRNA-Seq, DNA_microarray, Microarray, In situ hybridization and Expressed sequence tag, EST studies, across multiple animal species. Bgee provides an intuitive answer to the question ''where is a gene expressed?'' and supports research in cancer and agriculture, as well as evolutionary biology. Bgee is based exclusively on curated, healthy Wild type, wild-type, expression data (i.e., no Gene knockout, gene knock-out, no treatment, no disease), to provide a comparable reference of healthy wild-type gene expression. Bgee produces calls of presence/absence of expression, and of differential over-/under-expression, integrated along with information of gene Sequence homology#Orthology, orthology, and of Homology (biology), homology between Organ (biology), organs. This allows comparisons o ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Gene Expression
Gene expression is the process (including its Regulation of gene expression, regulation) by which information from a gene is used in the synthesis of a functional gene product that enables it to produce end products, proteins or non-coding RNA, and ultimately affect a phenotype. These products are often proteins, but in non-protein-coding genes such as Transfer RNA, transfer RNA (tRNA) and Small nuclear RNA, small nuclear RNA (snRNA), the product is a functional List of RNAs, non-coding RNA. The process of gene expression is used by all known life—eukaryotes (including multicellular organisms), prokaryotes (bacteria and archaea), and viruses—to generate the macromolecule, macromolecular machinery for life. In genetics, gene expression is the most fundamental level at which the genotype gives rise to the phenotype, ''i.e.'' observable trait. The genetic information stored in DNA represents the genotype, whereas the phenotype results from the "interpretation" of that informati ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Swiss Institute Of Bioinformatics
The SIB Swiss Institute of Bioinformatics is an academic not-for-profit foundation which federates bioinformatics activities throughout Switzerland. The institute was established on 30 March 1998 and its mission is to provide core bioinformatics resources to the national and international life science research community in fields such as genomics, proteomics and systems biology as well as to lead and coordinate the field of bioinformatics in Switzerland. In particular, it promotes research, develops databanks and computer technologies, and is involved in teaching and service activities. History The institute was originally created to provide a framework for stable long-term funding for both the Swiss-Prot database and the Swiss EMBnet node. Swiss-Prot in particular went through a major funding crisis in 1996, which led the leaders of the five research groups active in bioinformatics in Geneva and Lausanne, Ron Appel, Amos Bairoch, Philipp Bucher, Victor Jongeneel and ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
SIB Swiss Institute Of Bioinformatics
The SIB Swiss Institute of Bioinformatics is an Academia, academic Nonprofit organization, not-for-profit Foundation (charity), foundation which federates bioinformatics activities throughout Switzerland. The institute was established on 30 March 1998 and its mission is to provide core bioinformatics resources to the national and international life science research community in fields such as genomics, proteomics and systems biology as well as to lead and coordinate the field of bioinformatics in Switzerland. In particular, it promotes research, develops database, databanks and computer technologies, and is involved in teaching and service activities. History The institute was originally created to provide a framework for stable long-term funding for both the Swiss-Prot database and the Swiss EMBnet node. Swiss-Prot in particular went through a major funding crisis in 1996, which led the leaders of the five research groups active in bioinformatics in Geneva and Lausanne, ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Global Biodata Coalition
The Global Biodata Coalition is an organization promoting biocuration and fostering support of research funders for the sustainability of biological data resources. Global Core Biodata Resources (GCBRs) The organization maintains a list of resources, representing "critical components for ensuring the reproducibility and integrity of life sciences research." As of 2023, the list includes the following organizations: * Alliance of Genome Resources * BacDive * BAR: Bio-Analytic Resource for Plant Biology * Bgee * BRENDA * Catalogue of Life (COL) * CATH database * Cellosaurus * ChEBI * ChEMBL * CIViC: Clinical Interpretation of Variants in Cancer * Clinical Genome Resource (ClinGen) * DNA Data Bank of Japan (DDBJ Center) * EcoCyc * Ensembl * Europe PMC * European Nucleotide Archive (ENA) * FlyBase * GENCODE * Gene Ontology (GO) * Global Biodiversity Information Facility (GBIF) * Genome Aggregation Database (gnomAD) * Genome Sequence Archive (GSA) * NHGRI-EBI Catalog o ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Sequence Homology
Sequence homology is the homology (biology), biological homology between DNA sequence, DNA, RNA sequence, RNA, or Protein primary structure, protein sequences, defined in terms of shared ancestry in the evolutionary history of life. Two segments of DNA can have shared ancestry because of three phenomena: either a speciation event (orthologs), or a Gene duplication, duplication event (paralogs), or else a Horizontal gene transfer, horizontal (or lateral) gene transfer event (xenologs). Homology among DNA, RNA, or proteins is typically inferred from their nucleotide or amino acid sequence similarity. Significant similarity is strong evidence that two sequences are related by evolutionary changes from a common ancestral sequence. Sequence alignment, Alignments of multiple sequences are used to indicate which regions of each sequence are homologous. Identity, similarity, and conservation The term "percent homology" is often used to mean "sequence similarity”, that is the percen ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Genetics Databases
Genetics is the study of genes, genetic variation, and heredity in organisms.Hartl D, Jones E (2005) It is an important branch in biology because heredity is vital to organisms' evolution. Gregor Mendel, a Moravian Augustinian friar working in the 19th century in Brno, was the first to study genetics scientifically. Mendel studied "trait inheritance", patterns in the way traits are handed down from parents to offspring over time. He observed that organisms (pea plants) inherit traits by way of discrete "units of inheritance". This term, still used today, is a somewhat ambiguous definition of what is referred to as a gene. Trait inheritance and molecular inheritance mechanisms of genes are still primary principles of genetics in the 21st century, but modern genetics has expanded to study the function and behavior of genes. Gene structure and function, variation, and distribution are studied within the context of the cell, the organism (e.g. dominance), and within the con ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
FAIR Data
FAIR data is data which meets the FAIR principles of findability, accessibility, interoperability, and reusability (FAIR). The acronym and principles were defined in a March 2016 paper in the journal '' Scientific Data'' by a consortium of scientists and organizations. The FAIR principles emphasize machine-actionability (i.e., the capacity of computational systems to find, access, interoperate, and reuse data with none or minimal human intervention) because humans increasingly rely on computational support to deal with data as a result of the increase in the volume, complexity, and rate of production of data. Material was copied from this source, which is available under Creative Commons Attribution 4.0 International License The abbreviation is sometimes used to indicate that the dataset or database in question complies with the FAIR principles and also carries an explicit data‑capable open license. FAIR principles published by GO FAIR Acceptance and implementation ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
ELIXIR
An elixir is a sweet liquid used for medical purposes, to be taken orally and intended to cure one's illness. When used as a dosage form, pharmaceutical preparation, an elixir contains at least one active ingredient designed to be taken orally. Etymology The word was introduced in late Middle English, through Medieval Latin, Latin from the Arabic Language, Arabic (), which in turn is the Arabization of the Ancient Greek () (from () ). For centuries, ''elixir'' primarily meant an ingredient used in alchemy, either referring to a liquid which purportedly converts lead to gold, or a substance or liquid which is believed to cure all ills and Elixir of immortality, give eternal life. Types Non-medicated elixirs These are used as solvents or vehicles for the preparation of medicated elixirs. Active ingredients are dissolved in a 15–50% by volume solution of Ethanol, ethyl alcohol: *aromatic elixirs (United States Pharmacopeia, USP) *isoalcoholic elixirs (Formulary (pharm ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Scientific Integrity
Research integrity or scientific integrity is an aspect of research ethics that deals with best practice or rules of professional practice of scientists. First introduced in the 19th century by Charles Babbage, the concept of research integrity came to the fore in the late 1970s. A series of publicized scandals in the United States led to heightened debate on the ethical norms of sciences and the limitations of the self-regulation processes implemented by scientific communities and institutions. Formalized definitions of scientific misconduct, and codes of conduct, became the main policy response after 1990. In the 21st century, codes of conduct or ethics codes for research integrity are widespread. Along with codes of conduct at institutional and national levels, major international texts include the European Charter for Researchers (2005), the Singapore statement on research integrity (2010), the European Code of Conduct for Research Integrity (2011 & 2017) and the Hong Kong princ ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Reproducibility
Reproducibility, closely related to replicability and repeatability, is a major principle underpinning the scientific method. For the findings of a study to be reproducible means that results obtained by an experiment or an observational study or in a statistical analysis of a data set should be achieved again with a high degree of reliability when the study is replicated. There are different kinds of replication but typically replication studies involve different researchers using the same methodology. Only after one or several such successful replications should a result be recognized as scientific knowledge. History The first to stress the importance of reproducibility in science was the Anglo-Irish chemist Robert Boyle, in England in the 17th century. Boyle's air pump was designed to generate and study vacuum, which at the time was a very controversial concept. Indeed, distinguished philosophers such as René Descartes and Thomas Hobbes denied the very possibility of vacuum ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Developmental Biology
Developmental biology is the study of the process by which animals and plants grow and develop. Developmental biology also encompasses the biology of Regeneration (biology), regeneration, asexual reproduction, metamorphosis, and the growth and differentiation of stem cells in the adult organism. Perspectives The main processes involved in the embryogenesis, embryonic development of animals are: tissue patterning (via regional specification and patterned cellular differentiation, cell differentiation); tissue growth; and tissue morphogenesis. * Regional specification refers to the processes that create the spatial patterns in a ball or sheet of initially similar cells. This generally involves the action of cytoplasmic determinants, located within parts of the fertilized egg, and of inductive signals emitted from signaling centers in the embryo. The early stages of regional specification do not generate functional differentiated cells, but cell populations committed to developing ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
Cell Type
A cell type is a classification used to identify cells that share morphological or phenotypical features. A multicellular organism may contain cells of a number of widely differing and specialized cell types, such as muscle cells and skin cells, that differ both in appearance and function yet have identical genomic sequences. Cells may have the same genotype, but belong to different cell types due to the differential regulation of the genes they contain. Classification of a specific cell type is often done through the use of microscopy (such as those from the cluster of differentiation family that are commonly used for this purpose in immunology). Recent developments in single cell RNA sequencing facilitated classification of cell types based on shared gene expression patterns. This has led to the discovery of many new cell types in e.g. mouse cortex, hippocampus, dorsal root ganglion and spinal cord. Animals have evolved a greater diversity of cell types in a multicellular b ... [...More Info...] [...Related Items...] OR: [Wikipedia] [Google] [Baidu] |
