Civil Rights
Movements, leaders, victories and the continuing fight for equality.
q2K BHP
Black History Portal
THE BHP WIRE —
HIDDEN TRUTHS
What's New!
Explore the people, places, events, achievements, struggles and stories that shaped our journey.
Movements, leaders, victories and the continuing fight for equality.
Innovation, patents, science, technology and world-changing contributions.
Pioneers, champions, Negro Leagues, records, activism and excellence.
Meet the people whose lives, choices and achievements shaped the journey.
Black towns, communities, institutions and places where history happened.
Moments that changed communities, movements, institutions and the nation.
Wilmington, North Carolina once had a thriving Black middle class and an elected interracial government. In 1898 white supremacists used violence to overthrow that government, kill Black residents and drive many others from the city.
MORE →Reflects the personal views, recollections, and perspective of the author, Mike Davis.
This is a personal recollection on the Move fire on May 13, 1985
The International Nucleotide Sequence Database Collaboration (INSDC) consists of a joint effort to collect and disseminate databases containing DNA and RNA sequences.[1] It involves the following computerized databases: NIG's DNA Data Bank of Japan (Japan), NCBI's GenBank (United States) and the EMBL-EBI's European Nucleotide Archive. New and updated data on nucleotide sequences contributed by research teams to each of the three databases are synchronized on a daily basis through continuous interaction between the staff at each of the collaborating organizations.
All of the data in INSDC is available for free and unrestricted access, for any purpose, with no restrictions on analysis, redistribution, or re-publication of the data. This policy has been a foundational principle of the INSDC since its inception.[2] Since the 1990s, most of the world's major scientific journals have required that sequence data be deposited in an INSDC database as a pre-condition for publication.
The Data Bank of Japan/GenBank/EMBL-EBI synchronization is maintained according to a number of guidelines which are produced and published by an International Advisory Board.[3] The guidelines consist of a common definition of the feature tables [4] for the databases, which regulate the content and syntax of the database entries,[5] in the form of a common DTD (Document Type Definition).
The syntax is called INSDSeq and its core consists of the letter sequence of the gene expression (amino acid sequence) and the letter sequence for nucleotide bases in the gene or decoded segment. In a DBFetch operation shows a typical INSD entry at the EMBL-EBI database;[6] the same entry at NCBI.[7]
Source: Wikipedia. Article content is retrieved live through the MediaWiki API.
The International Nucleotide Sequence Database Collaboration (INSDC) consists of a joint effort to collect and disseminate databases containing DNA and RNA sequences. It involves the following computerized databases: NIG's DNA Data Bank of Japan (Japan), NCBI's GenBank (United States) and the EMBL-EBI's European Nucleotide Archive. New and updated data on nucleotide sequences contributed by research teams to each of the three databases are synchronized on a daily basis through continuous interaction between the staff at each of the collaborating organizations. All of the data in INSDC is available for free and unrestricted access, for any purpose, with no restrictions on analysis, redistribution, or re-publication of the data. This policy has been a foundational principle of the INSDC since its inception. Since the 1990s, most of the world's major scientific journals have required that sequence data be deposited in an INSDC database as a pre-condition for publication. The Data Bank of Japan/GenBank/EMBL-EBI synchronization is maintained according to a number of guidelines which are produced and published by an International Advisory Board. The guidelines consist of a common definition of the feature tables for the databases, which regulate the content and syntax of the database entries, in the form of a common DTD (Document Type Definition). The syntax is called INSDSeq and its core consists of the letter sequence of the gene expression (amino acid sequence) and the letter sequence for nucleotide bases in the gene or decoded segment. In a DBFetch operation shows a typical INSD entry at the EMBL-EBI database; the same entry at NCBI.
A palindromic sequence is a nucleic acid sequence in a double-stranded DNA or RNA molecule whereby reading in a certain direction (e.g. 5' to 3') on one strand is identical to the sequence in the same direction (e.g. 5' to 3') on the complementary strand. This definition of palindrome thus depends on complementary strands being palindromic of each other. The meaning of palindrome in the context of genetics is slightly different from the definition used for words and sentences. Since a double helix is formed by two paired antiparallel strands of nucleotides that run in opposite directions, and the nucleotides always pair in the same way (adenine (A) with thymine (T) in DNA or uracil (U) in RNA; cytosine (C) with guanine (G)), a (single-stranded) nucleotide sequence is said to be a palindrome if it is equal to its reverse complement. For example, the DNA sequence ACCTAGGT is palindromic with its nucleotide-by-nucleotide complement TGGATCCA because reversing the order of the nucleotides in the complement gives the original sequence. A palindromic nucleotide sequence is capable of forming a hairpin. The stem portion of the hairpin is a pseudo-double stranded portion since the entire hairpin is a part of same (single) strand of nucleic acid. Palindromic motifs are found in most genomes or sets of genetic instructions. They have been specially researched in bacterial chromosomes and in the so-called Bacterial Interspersed Mosaic Elements (BIMEs) scattered over them. In 2008, a genome sequencing project discovered that large portions of the human X and Y chromosomes are arranged as palindromes. A palindromic structure allows the Y chromosome to repair itself by bending over at the middle if one side is damaged. Palindromes also appear to be found frequently in the peptide sequences that make up proteins, but their role in protein function is not clearly known. It has been suggested that the existence of palindromes in peptides might be related to the prevalence of low-complexity regions in proteins, as palindromes are frequently associated with low-complexity sequences. Their prevalence may also be related to the propensity of such sequences to form alpha helices or protein/protein complexes.
The Sequence Read Archive (SRA, previously known as the Short Read Archive) is a bioinformatics database that provides a public repository for DNA sequencing data, especially the "short reads" generated by high-throughput sequencing, which are typically less than 1,000 base pairs in length. The archive is part of the International Nucleotide Sequence Database Collaboration (INSDC), and run as a collaboration between the NCBI, the European Bioinformatics Institute (EBI), and the DNA Data Bank of Japan (DDBJ). The archive was established by the National Center for Biotechnology Information (NCBI) in 2007 in order to provide a repository for data produced by RNA-Seq and ChIP-Seq studies as well as large-scale studies including the Human Microbiome Project and the 1000 Genomes Project. Originally called the Short Read Archive, the name was changed in anticipation of future sequencing technologies being able to produce longer sequence reads. The volume of data deposited in the Sequence Read Archive has grown rapidly. As of September 2010, 65% of the SRA was human genomic sequence, with another 16% relating to human metagenome sequence reads. Much of this data was deposited through the 1000 Genomes Project. In June 2011, the data contained within the SRA passed 100 Terabases of DNA in volume. The preferred data format for files submitted to the SRA is the BAM format, which is capable of storing both aligned and unaligned reads. Internally the SRA relies on the NCBI SRA Toolkit, used at all three INSDC member databases, to provide flexible data compression, API access and conversion to other formats such as FASTQ. NCBI announced their plan to close the NCBI SRA in February 2011 due to funding reduction. However, EBI and DDBJ announced that they would continue to support the SRA. In October 2011, NCBI announced continuation of funding for the SRA. Deposition of data in the SRA is mandated by most funding agencies and open access journals. Nature Publishing Group journals require that DNA and RNA sequencing data is made available through the SRA.
The Kozak consensus sequence (Kozak consensus or Kozak sequence) is a nucleic acid sequence that functions as the protein translation initiation site in most transcripts of archaeal and eukaryotic mRNA. Archaeal transcriptomes use a mix of Kozak sequence, leaderless initiation and, more rarely, the Shine–Dalgarno sequence. Most of the initiation, elongation, and termination factors in archaea have homologs in eukaryotes. Regarded as the optimum sequence for initiating translation in eukaryotes, the sequence is an integral aspect of protein regulation and overall cellular health as well as having implications in human disease. It ensures that a protein is correctly translated from the genetic message, mediating ribosome assembly and translation initiation. A wrong start site can result in non-functional proteins. As it has become more studied, expansions of the nucleotide sequence, bases of importance, and notable exceptions have arisen. Haloarchaea are known to have a variant of the Kozak consensus sequence in their Hsp70 genes. The sequence was named after the scientist who discovered it, Marilyn Kozak. Kozak discovered the sequence through a detailed analysis of DNA genomic sequences. The Kozak sequence is not to be confused with the ribosomal binding site (RBS), that being either the 5′ cap of a messenger RNA or an internal ribosome entry site (IRES).
Before the 1921 destruction of Tulsa’s Greenwood District, Black residents had created a remarkable center of business and community life. The district included stores, professional offices, entertainment venues and homes owned by Black citizens. Understanding Greenwood means learning what was built—not only what was burned.
MORE →Joe Louis.
