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*  Toward richer metadata for microbial sequences: replacing strain-level NCBI taxonomy taxids with BioProject, BioSample and...
In later steps of the genome submission process, users provide sequence data and functional annotation that connect to the ... using a taxid as a key to retrieve the genome and associated project metadata was a reasonable approach. However, with next- ... the European Molecular Biology Laboratory, and the Ministry of Education, Culture, Sports, Science and Technology of Japan ( ... ArrayExpress update-trends in database growth and links to data analysis tools. Nucleic Acids Res. 2013; 41:D987-D990 View ...
  http://standardsingenomics.org/content/9/3/1275/
*  List of sequenced bacterial genomes - Wikipedia
For the genomes of archaea see list of sequenced archaeal genomes. Genome project Human microbiome project List of sequenced ... 2003). "The genome sequence of Blochmannia floridanus: comparative analysis of reduced genomes". Proc. Natl. Acad. Sci. U.S.A. ... 2006). "Molecular genetic anatomy of inter- and intraserotype variation in the human bacterial pathogen group A Streptococcus ... 2006). "Escherichia coli K-12: a cooperatively developed annotation snapshot-2005". Nucleic Acids Res. 34 (1): 1-9. doi:10.1093 ...
  https://en.wikipedia.org/wiki/List_of_sequenced_bacterial_genomes
*  Research at the RBVI
Applications range from small, targeted sequencing projects to genome annotation to large-scale metagenomics analyses. ... TR&D 2: Software for Interactive Analysis of Large Molecular Assemblies. This project continues our successful development of ... Previously, large sequencing projects were the exclusive domain of a few dozen genome centers in the US and around the world. ... The DeRisi lab has several ongoing whole genome and metagenomic sequencing and assembly projects that can provide real-world, ...
  http://www.cgl.ucsf.edu/Research/index.html
*  Frontiers | 4-Coumarate-CoA Ligase-Like Gene OsAAE3 Negatively Mediates the Rice Blast Resistance, Floret Development and...
A phylogenetic analysis showed that OsAAE3 was most likely 4CL-like 10 in an independent group. OsAAE3 was localized to ... A phylogenetic analysis showed that OsAAE3 was most likely 4CL-like 10 in an independent group. OsAAE3 was localized to ... In the present study, we identified an AMPBP OsAAE3 from a previous analysis of early responsive genes in rice during ... In the present study, we identified an AMPBP OsAAE3 from a previous analysis of early responsive genes in rice during ...
  https://www.frontiersin.org/articles/10.3389/fpls.2016.02041/full
*  Apollo Introduction for the Chestnut Research Community
We need annotation editing tools to modify and refine precise location and structure … ... 3. 3 Genome Sequencing Project Introduction Assembly Automated Annotation Manual annotation Using Web Apollo Merge: automated ... 2. OUTLINE Web Apollo Collabora've Cura'on and Interac've Analysis of Genomes 2OUTLINE • MANUAL ANNOTATION necessary, ... 6. 6CURATING GENOMES What is a gene? v The defini'on of a gene paints a very complex picture of molecular ac'vity and it is a ...
  https://www.slideshare.net/MonicaMunozTorres/apollo-introduction-for-the-chestnut-research-community
*  The Cancer Genome Atlas API How To's | ProgrammableWeb
... is a project to improve the understanding of the molecular basis of cancer through the application of genome analysis ... Available information includes annotations, data matrices, data reports, project metadata, and biospecimen metadata. ... including large-scale genome sequencing. TCGA offers a collection of APIs that provide REST-based, programmatic access to its ...
  https://www.programmableweb.com/api/cancer-genome-atlas/how-to
*  Genome project - Wikipedia
... molecular biology and bioinformatics have created the need for DNA annotation. DNA annotation or genome annotation is the ... private company involved in genome sequencing Knome, private company offering genome analysis & sequencing Pevsner, Jonathan ( ... Genome Project Domestic Cow Bovine Genome Honey Bee Genome Sequencing Consortium Horse genome Human microbiome project ... a complete genome sequence will involve 46 separate chromosome sequences. The Human Genome Project was a landmark genome ...
  https://en.wikipedia.org/wiki/Genome_project
*  Advanced bioinformatics for genome and metagenome analyses and discovery of novel biocatalists from extremophiles: implications...
BMR Genomics and COMSATS possess all the facilities for genome sequencing and annotation and bioinformatic expertise with the ... Projects and Results *Advanced bioinformatics for genome and metagenome analyses and discovery of novel biocatalists from ... New insight on the molecular mechanisms responsible for cold-adaptation and/or environmental adaptation Publications on the ... Publication of new pipelines to assist genome annotation of unknown sequences.On-line open source softwares. ...
  https://cordis.europa.eu/project/rcn/194362_en.html
*  Symbiose Project Team - INRIA/Irisa - Fabrice LEGEAI
Its main goals are to supply the needs on automatically or manually annotation, genome browsing or genome comparative analyses ... Ollivier M., Legeai F., Rispe C. (2010) Comparative analysis of the Acyrthosiphon pisum genome and expressed sequence tag-based ... A centralized bioinformatic resource for annotation of the pea aphid genome. Insect Molecular Biology vol19,0,5-12 ... Analysis of virion structural components reveals vestiges of the ancestral ichnovirus genome. PLoS Pathog. 2010 May 27;6(5). ...
  http://www.irisa.fr/symbiose/index2.php?option=com_content&task=view&id=70&pop=1&page=0
*  Frontiers | Genome-wide analysis of the CaHsp20 gene family in pepper: comprehensive sequence and expression profile analysis...
... were identified and renamed on the basis of their molecular weight, and then their gene structure, genome location, gene ... genome location, gene duplication, phylogenetic relationship and interaction network were also analyzed. The expression ... which provides the basis for further functional analyses of CaHsp20s in the formation of pepper acquired thermotoleance. ... were identified and renamed on the basis of their molecular weight, and then their gene structure, ...
  https://www.frontiersin.org/articles/10.3389/fpls.2015.00806/full
*  Project : USDA ARS
... four lines have been resequenced and the analysis of the sequences has been initiated. Knowledge of the genome sequence of ... Molecular, morphological and cytological analysis of diverse Brachypodium distachyon inbred lines. Genome. 52:876-890. ... Create a population of insertional mutants, sets of diverse inbred lines and improved annotation of the genome sequence. Apply ... Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature. 463:763-768.. ...
  https://www.ars.usda.gov/research/project/?accnNo=418493&fy=2010
*  SH2D1B - Wikipedia
Eissmann P, Watzl C (2006). "Molecular analysis of NTB-A signaling: a role for EAT-2 in NTB-A-mediated activation of human NK ... 2006). "The DNA sequence and biological annotation of human chromosome 1". Nature. 441 (7091): 315-21. doi:10.1038/nature04727 ... 2004). "The Status, Quality, and Expansion of the NIH Full-Length cDNA Project: The Mammalian Gene Collection (MGC)". Genome ... 2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci ...
  https://en.wikipedia.org/wiki/SH2D1B
*  ERC2-IT1 Gene - GeneCards | ERC2-IT1 RNA Gene
The DNA sequence, annotation and analysis of human chromosome 3. (PMID: 16641997) Muzny DM … Gibbs RA (Nature 2006) 4 58 ... MGC Project Team (Genome research 2004) 4 58 ... Molecular cloning and expression analysis of five novel genes ... Molecular mass:. 14968 Da. Quaternary structure:. No Data Available SequenceCaution:. *Sequence=AAC39932.1; Type=Frameshift; ... Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL ...
  https://www.genecards.org/cgi-bin/carddisp.pl?gene=ERC2-IT1
*  The CNIO takes part in the biggest European project for the study of the epigenome | EurekAlert! Science News
The identity of each cell type is largely defined by an instructive layer of molecular annotations on top of the genome - the ... For example, the use of assortativity for the analysis of the 3D configuration of the genome, published in Genome Biology. ... biology is how the many different cell types that make up our bodies are derived from a single cell and from one DNA sequence, ... has participated coordinating the data analysis and making data accessible in the BLUEPRINT project, the major European partner ...
  https://www.eurekalert.org/pub_releases/2016-11/cndi-tct111616.php
*  RPF1 Gene - GeneCards | RPF1 Protein | RPF1 Antibody
Genome research 2004) 3 4 58 * Functional proteomic analysis of human nucleolus. (PMID: 12429849) Scherl A … Diaz JJ (Molecular ... The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58 ... The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) ... Molecular mass:. 40111 Da. Quaternary structure:. No Data Available SequenceCaution:. *Sequence=CAH71915.1; Type=Erroneous gene ...
  http://www.genecards.org/cgi-bin/carddisp.pl?gene=RPF1
*  Genomics - Wikipedia
The DNA sequence assembly alone is of little value without additional analysis. Genome annotation is the process of attaching ... genomics is a field of molecular biology that attempts to make use of the vast wealth of data produced by genomic projects ( ... sequencing. Shotgun sequencing is a sequencing method designed for analysis of DNA sequences longer than 1000 base pairs, up to ... This project, completed in 2003, sequenced the entire genome for one specific person, and by 2007 this sequence was declared " ...
  https://en.wikipedia.org/wiki/Genomics
*  IJMS | Free Full-Text | Identification and Comparative Analysis of CBS Domain-Containing Proteins in Soybean (Glycine max) and...
... the Rice Genome Annotation Project [41], and used as queries in BLAST searches against the soybean genome database of the ... phylogenetic analysis based on alignments of the 71 full-length CBS protein sequences was performed. The phylogenetic analysis ... Lv, Q.D.; Tang, R.J.; Liu, H.; Gao, X.S.; Zheng, H.Q.; Zhang, H.X. Cloning and molecular analyses of the Arabidopsis thaliana ... Sequences of Arabidopsis and Oryza sativa CBS domain containing proteins (CDCPs) were retrieved from the Arabidopsis genome ...
  https://www.mdpi.com/1422-0067/17/5/620/htm
*  The Hyphal Tip | Digesting the fungal genomes | Page 4
... genome assembly and annotation, and comparative analyses of genome evolution. Opportunities for mentoring undergraduates or ... The projects are supported by NSF and two JGI Community Sequencing Projects. ... The project outlined for this post doc position aims at understanding the underlying molecular basis of host specialization of ... Digesting the fungal genomes. Follow fungalgenomes on Twitter. My Tweets. Tags. *annotation ...
  http://fungalgenomes.org/blog/page/4/
*  Agmatinase - Wikipedia
Human AGMAT genome location and AGMAT gene details page in the UCSC Genome Browser. Molecular and Cellular Biology portal. ... 2006). "The DNA sequence and biological annotation of human chromosome 1". Nature. 441 (7091): 315-21. doi:10.1038/nature04727 ... 2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences". Proc. Natl. Acad. Sci ... 2004). "The Status, Quality, and Expansion of the NIH Full-Length cDNA Project: The Mammalian Gene Collection (MGC)". Genome ...
  https://en.wikipedia.org/wiki/Agmatinase
*  Palladin - Wikipedia
Sequencing and Analysis of 500 Novel Complete Protein Coding Human cDNAs". Genome Res. 11 (3): 422-35. doi:10.1101/gr.GR1547R. ... 2004). "Molecular analysis of the interaction between palladin and alpha-actinin". FEBS Lett. 566 (1-3): 30-4. doi:10.1016/j. ... 2005). "Generation and annotation of the DNA sequences of human chromosomes 2 and 4". Nature. 434 (7034): 724-31. doi:10.1038/ ... 2004). "The Status, Quality, and Expansion of the NIH Full-Length cDNA Project: The Mammalian Gene Collection (MGC)". Genome ...
  https://en.wikipedia.org/wiki/Palladin
*  Department of Plant Molecular Biology - Saurabh Raghuvanshi
The rice annotation project (2007). Curated genome annotation of Oryza sativa ssp. japonica and comparative genome analysis ... International Rice Genome Sequencing Consortium (2005). Map based sequence of the rice genome. (Authors from UDSC) S. ... Genome Research, 17: 175-183.. *The Rice Chromosomes 11 and 12 Sequencing Consortia (2005). The sequence of rice chromosomes 11 ... In order to gather a comprehensive perspective 'Deep sequencing' followed by bioinformatics analysis of the entire small RNA ...
  http://dpmb.ac.in/index.php?mact=News,mc784f,default,1&mc784fnumber=3&mc784fmoretext=Read%20more...&mc784fpagenumber=18&mc784freturnid=68&page=68
*  Genome-wide identification of rice class I metallothionein gene: tissue expression patterns and induction in response to heavy...
... are members of a family of cysteine-rich low molecular weight polypeptides which play an important role in heavy metal ... Our analysis suggests presence of 11 class I MT genes in rice genome (Release 7 of the MSU Rice Genome Annotation Project) ... Gene expression analysis by massively parallel signature sequencing (MPSS) on microbead arrays. Nat Biotechnol 18:630-634PubMed ... Zhou G, Xu Y, Li J, Yang L, Liu JY (2006) Molecular analyses of the metallothionein gene family in rice (Oryza sativa L.). J ...
  https://link.springer.com/article/10.1007/s10142-012-0297-9
*  C1orf35 Gene - GeneCards | MMTA2 Protein | MMTA2 Antibody
The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 58 ... MGC Project Team (Genome research 2004) 3 4 58 ... Cloning and sequence analysis of tumor-associated gene hMMTAG2 ... No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription ... Suggested Antigen Peptide Sequences for C1orf35 Gene. GenScript: Design optimal peptide antigens:. *Multiple myeloma tumor- ...
  https://www.genecards.org/cgi-bin/carddisp.pl?gene=C1orf35
*  Complete genome sequence and analysis of Wolinella succinogenes | PNAS
Annotation and Analysis. Curation and annotation of the genome was done by using the annotation package gendb (21). ORFs were ... which is ensembled largely by the same molecular components as described for H. pylori and C. jejuni (28, 61) and constitutes ... succinogenes has triggered several projects that investigated the unique aspects of its monotrichous flagellation and the ... Complete genome sequence and analysis of Wolinella succinogenes. Claudia Baar, Mark Eppinger, Guenter Raddatz, Jörg Simon, ...
  http://www.pnas.org/content/100/20/11690.long
*  Frontiers | Brassinosteroids Regulate OFP1, a DLT Interacting Protein, to Modulate Plant Architecture and Grain Morphology in...
Genetic analysis showed that the regulation of plant architecture by OFP1 depends on DLT function. In addition, we found OFP1 ... Genetic analysis showed that the regulation of plant architecture by OFP1 depends on DLT function. In addition, we found OFP1 ... According to rice genome annotation project2, OFP1 (LOC_Os01g12690) is intronless and contains 1185-bp coding sequence, 44-bp 5 ... Vector Constructions and Transgenic Analysis. The DNA sequence containing the promoter and coding sequence of OFP1 was cloned ...
  https://www.frontiersin.org/articles/10.3389/fpls.2017.01698/full