The dataset is comprised of: 1)VOC concentrations of soil gas and indoor air samples collected over the site; 2) the pressure readings used to monitor the pressure differential between subslab and indoor air.

The dataset is comprised of VOC concentrations of soil gas, outdoor and indoor air samples collected at the site for the duration of this study. This dataset is associated with the following publication: Zimmerman, J., A. Williams, B. Schumacher, C. Lutes, L. Levy, G. Buckley, V. Boyd, C. Holton, T. McAlary, and R. Truesdale. The Representativeness of Subslab Soil Gas Collection as Effected by Probe Construction and Sampling Methods. Groundwater Monitoring & Remediation. Wiley-Blackwell Publishing, Hoboken, NJ, USA, 44(3): 106-121, (2024).

Data provider: Scientific Center of Soil Sciences, Agrochemistry and Melioration after Hrant Petrossyan, ANAUContact: gayanehgasparyan@gmail.com

dbRES is a web-oriented comprehensive database for RNA Editing Site. dbRES contain only experimental validated RNA Editing Site. All the data in dbRES was manually collected from literatures reporting related experiment result or the GeneBank database. dbRES now contains all together 5437 RNA edit site data. dbRES covers altogether 95 organisms from 251 transcripts. RNA editing is a post-transcriptional modification of RNA and markedly increases the complexity of the transcriptome. RNA editing occurs in the nucleus, as well as in mitochondria and plastids. To date such changes have been observed in prokaryotes, plants, animals and virus. The diversity of this widespread phenomenon includes nucleoside modifications, nucleotide additions and insertions, either in coding or non-coding sequences of RNA, which can occur concomitantly with transcription and splicing processes.

A web-based database of protein interaction sites. PiSITE provides not only information of interaction sites of a protein from single PDB entry, but also information of interaction sites of a protein from multiple PDB entries including similar proteins. PiSite also provides a list of sociable proteins, proteins with multiple binding states and multiple binding partners.In PiSITE, the identification of the binding sites of protein chains is performed by searching the same proteins with different binding states in PDB at first, and then mapping those binding sites onto the query proteins. The database PiSITE provides real interaction sites of proteins using the complex structures in PDB. According to the progress of several structural genomic projects, we have a large amount of structural data in PDB. Consequently, we can observe different binding states of proteins in atomic resolutions, and can analyze actual interaction sites of proteins. It will lead better understandings of protein interaction sites in near future. Usual practice to identify the interaction site has been done using a representative complex in PDB. However, for the proteins with multiple partners, non-interaction sites identified by using a single complex structure is not enough, because some part of the non-binding sites may be involved in the interaction sites with another proteins. Therefore, the real interaction sites should be obtained by using all of the binding states in PDB. For the purpose, the identifications of the binding site in PiSITE are done by searching the same proteins with different binding sites in PDB at first, and then mapping the binding sites onto the query proteins. PiSITE also provides the lists of transient hub proteins, which we call sociable proteins to clarify the different of so-called hub proteins. The sociable proteins are identified as the proteins with multiple binding states and multiple binding partners. On the other hand, so-called hub proteins have been identified as the proteins at the hub position in protein-protein interaction networks obtained by large-scale experiments, but the definition of the hub proteins cannot differentiate transient hub proteins from stable ones, although the differentiation is critically important for the better understanding of protein interaction networks. In addition, the usual definition of hub proteins can contain supermolecules as hub proteins. The supermolecules can be identified as the proteins with a single binding state and multiple binding partners, which we call stable hub proteins.

This layer of data locates the right-of-way of certain sites contained in the Sites & Organisations database. It covers the entire territory of Rennes Métropole.

It has several representations available in the formats listed below to display equipment in the form of a right-of-way or to highlight certain equipment according to its theme. Thus, it is possible to display: — the names of the equipment based on the names appearing on the town plans of the municipalities of Rennes Métropole — the grip of all the equipment of the layer in the form of a white cover — the right of way according to the themes of Sites & Organisations (sport, health, culture, education,...)

The id_site attribute makes it possible to attach these right-of-way to the sites of the Sites & Organisations database, a reference base for equipment on Rennes Métropole.

For more information on the sites, see the following metadata:
https://public.sig.rennesmetropole.fr/geonetwork/srv/fre/catalog.search#/metadata/56ace7a5-e6d0-4e1e-8685-e18d98ee151d

TassDB stores extensive data about alternative splice events at GYNGYN donors and NAGNAG acceptors. Currently, 114,554 tandem splice sites of eight species are contained in the database, 5,209 of which have EST/mRNA evidence for alternative splicing. Users can search by Transcript Accession Number and Gene Symbol, SQL Query, and Tandem Donor/Tandem Acceptor pairs.

The Agency for Toxic Substances and Disease Registry (ATSDR) Hazardous Waste Site Polygon Data with CIESIN Modifications, Version 2 is a database providing georeferenced data for 1,572 National Priorities List (NPL) Superfund sites. These were selected from the larger set of the ATSDR Hazardous Waste Site Polygon Data, Version 2 data set with polygons from May 26, 2010. The modified data set contains only sites that have been proposed, currently on, or deleted from the final NPL as of October 25, 2013. Of the 2,080 ATSDR polygons from 2010, 1,575 were NPL sites but three sites were excluded - 2 in the Virgin Islands and 1 in Guam. This data set is modified by the Columbia University Center for International Earth Science Information Network (CIESIN). The modified polygon database includes all the attributes for these NPL sites provided in the ATSDR GRASP Hazardous Waste Site Polygon database and selected attributes from the EPA List 9 Active CERCLIS sites and SCAP 12 NPL sites databases. These polygons represent sites considered for cleanup under the Comprehensive Environmental Response, Compensation and Liability Act (CERCLA or Superfund). The Geospatial Research, Analysis, and Services Program (GRASP, Division of Health Studies, Agency for Toxic Substances and Disease Registry, Centers for Disease Control and Prevention) has created site boundary data using the best available information for those sites where health assessments or consultations have been requested.

A gold-standard dataset of biologically relevant binding sites in protein structures. It consists of proteins with one unbound structure and at least one structure of the protein-ligand complex. Both a redundant and a non-redundant (sequence identity lower than 25) version is available. Quaternary structures proposed by PQS (2) are used for all structures in the dataset. The availability of both unbound and bound structures for each protein guarantees that our dataset can be used to benchmark binding site prediction methods, in conditions that mimic cases where the binding site is truly unknown. In cases where several different bound structures are available for a given protein, all are used to define the binding sites.

The Proteome 2D-PAGE Database system for microbial research is a curated database for storing and investigating proteomics data. Software tools are available and for data submission, please contact the Database Curator. Established at the Max Plank Institution for Infection Biology, this system contains four interconnected databases: i.) 2D-PAGE Database: Two dimensional electrophoresis (2-DE) and mass spectrometry of diverse microorganisms and other organisms. This database currently contains 4971 identified spots and 1228 mass peaklists in 44 reference maps representing experiments from 24 different organisms and strains. The data were submitted by 84 Submitters from 24 Institutes and 12 nations. It also contains various software tools that are important in formatting and analyzing gels and mass peaks; software include: *TopSpot: Scanning the gel, editing the spots and saving the information *Fragmentation: Fragmentation of the gel image into sections *MS-Screener: Perl script to compare the similarity of MALDI-PMF peaklists *MS-Screener update: MS-Screener can be used to compare mass spectra (MALDI-MS(/MS) as well as ESI-MS/MS spectra) on the basis of their peak lists (.dta, .pkm, .pkt, or .txt files), to recalibrate mass spectra, to determine and eliminate exogenous contaminant peaks, and to create matrices for cluster analyses. *GelCali: Online calibration of the Mr- and pI-axis of 2-DE gels with mathematical regression methods ii.)Isotope Coded Affinity Tag (ICAT)-LC/MS database: Isotope Coded Affinity Tag (ICAT)-LC/MS data for Mycobacterium tuberculosis strain BCG versus H37Rv. iii.) FUNC_CLASS database: Functional classification of diverse microorganism. This database also integrates genomic, proteomic, and metabolic data. iv.) DIFF database: Presentation of differently regulated proteins obtained by comparative proteomic experiments using computerized gel image analysis.

Database holding details of site inspections --> --> External Link--> --> -->

This layer of data locates the sites contained in the Sites & Organisations database managed by Rennes Métropole services. In the long term, other actors will be able to contribute to the updating of this database (territorial authorities, equipment managers, association...). This layer is the result of merging 3 layers of data that were managed by 3 different services. To streamline their management and pool updating efforts, it was decided to group them into a single database (the Sites & Organisations database) and set up an appropriate management tool. The Sites & Organisations database aims to bring together public, semi-public and private facilities receiving from the public as well as many associations that use them at the Rennes Métropole scale. The Sites & Organisations described may also be provided with business data specific to the profile of these various contributors. A “site” is a geographically located “container” (by an address and geographical coordinates) to which an “activity” described by an organisation (content) is mandatory. When a site is not limited to a building but is represented by a large area (e.g. sports complex, university, hospitals...), the notion of “father site” is used. An “organisation” represents an “activity” specified by a description, a nomenclature, keywords, timetables and, where applicable, business data. Its location will result from its association with a site. An organisation may not have a linked site (no location) when it comes to a phone number, a website... Description of the fields awarded: id_site: Site Identifier name_site: Site name name_pvci: Name of the site used on the Plan de Ville Communal et Intercommunal de Rennes Métropole etat_site: Site Status (active/inactive/project) id_level_site: Level (0 by default) id_site_pere: Father site identifier name_site_pere: Father site name id_org_main: Principal organism identifier name_org_main: Name of main organisation id_theme_main: Nomenclature (identifying the theme attached) name_theme_main: Nomenclature (name of theme attached) id_activite_main: Nomenclature (identifying the activity attached) name_activite_main: Nomenclature (name of activity attached) id_specialite_main: Nomenclature (identifying the speciality attached) name_specialite_main: Nomenclature (name of speciality attached) name_org_secondary: Name of organisation(s) associated with the site Access to the nomenclature is available below in the metadata.

Software tool as an annotated database of protein phosphorylation sites in eukaryotes. Contains experimentally identified and conserved p-sites which were collected from phosphoproteomic studies.

A dataset compiling all known terrestrial haul-out sites for the Atlantic walrus. The dataset comprises of the following documents: (1) the database in .csv format: walrus_haulout_database_Atlantic_caff_v4.csv; (2) the database in .shp format: walrus_haulout_database_Atlantic_caff_v4.shp; and (3) a user guidance document: user_guidance_atlantic_walrus_db.docx. The dataset will be updated annually. The latest update was 14th May 2025.

This Arctic-Boreal CO2 fluxes (ABCflux) dataset contains monthly aggregates of terrestrial net ecosystem CO2 exchange and its derived partitioned component fluxes: gross primary productivity (GPP) and ecosystem respiration. Over 70 supporting variables describe key site conditions (e.g., vegetation and disturbance type), micrometeorological and environmental measurements (e.g., air and soil temperatures), and flux measurement techniques. The data contained in this ABCflux dataset form a standardized monthly database of Arctic-Boreal CO2 fluxes (i.e., ABCflux Database) and include 244 sites and 6,309 monthly observations; 136 sites and 2,217 monthly observations represent tundra, and 108 sites and 4,092 observations represent the boreal biome. The data are for the period 1989 to 2020.

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 4,2023.The Human Gene and Protein Database presents SDS-PAGE patterns and other informations of human genes and proteins. The HGPD was constructed from full-length cDNAs. For conversion to Gateway entry clones, we first determined an open reading frame (ORF) region in each cDNA meeting the criteria. Those ORF regions were PCR-amplified utilizing selected resource cDNAs as templates. All the details of the construction and utilization of entry clones will be published elsewhere. Amino acid and nucleotide sequences of an ORF for each cDNA and sequence differences of Gateway entry clones from source cDNAs are presented in the GW: Gateway Summary window. Utilizing those clones with a very efficient cell-free protein synthesis system featuring wheat germ, we have produced a large number of human proteins in vitro. Expressed proteins were detected in almost all cases. Proteins in both total and supernatant fractions are shown in the PE: Protein Expression window. In addition, we have also successfully expressed proteins in HeLa cells and determined subcellular localizations of human proteins. These biological data are presented on the frame of cDNA clusters in the Human Gene and Protein Database. To build the basic frame of HGPD, sequences of FLJ full-length cDNAs and others deposited in public databases (Human ESTs, RefSeq, Ensembl, MGC, etc.) are assembled onto the genome sequences (NCBI Build 35 (UCSC hg17)). The majority of analysis data for cDNA sequences in HGPD are shared with the FLJ Human cDNA Database (http://flj.hinv.jp/) constructed as a human cDNA sequence analysis database focusing on mRNA varieties caused by variations in transcription start site (TSS) and splicing.

THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 29,2025. Database of functional residues in alpha-helical and beta-barrel membrane proteins. Each protein is identified with its name and source alongwith the Uniprot code. The protein data bank (PDB) codes are also given for available proteins. Different methods and experimental parameters, for example, affinity, dissociation constant, IC50, activity etc. are given in the database. Further, the database provides the numerical experimental value for each residue (or mutant) in a protein. The experimental data are collected from the literature both by searching the journals as well as with the keyword search at PUBMED. In addition, complete reference is given with journal citation and PMID number. TNFunction is cross-linked with the sequence database, Uniprot, structural database, PDB, and literature database, PubMed. The WWW interface enables users to search data based on various terms with different display options for outputs.

Measurement data of aboveground litterfall and littermass and litter carbon, nitrogen, and nutrient concentrations were extracted from 685 original literature sources and compiled into a comprehensive database to support the analysis of global patterns of carbon and nutrients in litterfall and litter pools. Data are included from sources dating from 1827 to 1997. The reported data include the literature reference, general site information (description, latitude, longitude, and elevation), site climate data (mean annual temperature and precipitation), site vegetation characteristics (management, stand age, ecosystem and vegetation-type codes), annual quantities of litterfall (by class, kg m-2 yr-1), litter pool mass (by class and litter layer, kg m-2), and concentrations of nitrogen (N), phosphorus (P), and base cations for the litterfall (g m-2 yr-1) and litter pool components (g m-2). The investigators intent was to compile a comprehensive data set of individual direct field measurements as reported by researchers. While the primary emphasis was on acquiring C data, measurements of N, P, and base cations were also obtained, although the database is sparse for elements other than C and N. Each of the 1,497 records in the database represents a measurement site. Replicate measurements were averaged according to conventions described in Section 5 and recorded for each site in the database. The sites were at 575 different locations.

The Contaminated Sites Register dataset is a spatial representation of individual sites recorded and classified by the Department of Water and Environmental (DWER) under the Contaminated Sites Act 2003 (the Act). The Act requires certain parties to report known or suspected contaminated sites. Show full description

Database of transcriptional start sites (TSSs) representing exact positions in the genome based on a unique experimentally validated TSS sequencing method, TSS Seq. A major part of human adult and embryonic tissues are covered. DBTSS contains 491 million TSS tag sequences collected from a total of 20 tissues and 7 cell cultures. Also integrated is generated RNA-seq data of subcellular- fractionated RNAs and ChIP Seq data of histone modifications, RNA polymerase II and several transcriptional regulatory factors in cultured cell lines. Also included is external epigenomic data, such as chromatin map of the ENCODE project. They associated those TSS information with public and original SNV data, in order to identify single nucleotide variations (SNVs) in the regulatory regions.