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1 oth data types (images and study participant metadata).
2 ides multiple ways to interact with preprint metadata.
3 configure, collect, validate, and distribute metadata.
4 be expanded to reveal underlying details and metadata.
5 perimental designs, especially with combined metadata.
6 representation and centralization of sample metadata.
7 collect, validate, distribute, and integrate metadata.
8 loading their associated expression data and metadata.
9 extensive databases that cover both types of metadata.
10 ssion process of data with its corresponding metadata.
11 configuring, capturing, viewing, and sharing metadata.
12 during 2003-2013, along with epidemiological metadata.
13 d associated bioinformatics and experimental metadata.
14 rary space from phylogenetic information and metadata.
15 omputed using the coordinates and associated metadata.
16 the "current standard" of detailed clinical metadata.
17 search tools rely almost exclusively on the metadata.
18 all annotated with detailed and standardized metadata.
19 omic model from a cryo-EM map with annotated metadata.
20 and integrate them with clinical and genomic metadata.
21 is of taxonomy and function, and support for metadata.
22 ns and the underlying biology in the form of metadata.
23 light on the privacy properties of telephone metadata.
24 experimental parameters in diffraction image metadata.
25 n of assembled metagenomes and their complex metadata.
26 ic databases and link findings to associated metadata.
27 projects along with a broad array of curated metadata.
28 g depth of coverage and integrating relevant metadata.
29 e, we have used standards to expose data and metadata.
30 We also prospectively collected clinical metadata.
31 luable when they are accompanied by detailed metadata.
32 more reidentifiable than men in credit card metadata.
33 cles to automate the retrieval of sufficient metadata.
34 for rapid identification to link species to metadata.
35 call format) in the context of geographical metadata.
36 edical Ontology (OBO) class descriptions and metadata.
37 access and analyze bioassay test results and metadata.
38 , their raw experimental data and associated metadata.
39 res and sequence typing data] and associated metadata.
40 tically generated lipid molecules and useful metadata.
41 e correlated with clinical, diet and genetic metadata.
42 nloadable as a single file with accompanying metadata.
43 and publicly available genomes with curated metadata.
44 become publicly available with standardized metadata.
45 and customize, and can utilize user supplied metadata.
46 relate alpha-diversity measures and clinical metadata.
47 mary read coverage information and annotated metadata.
48 ons), resolutions, data density patterns and metadata.
49 sest relatives in a database of genomes with metadata.
50 save, share and download matching sequencing metadata.
51 ut does not store contextual information and metadata.
52 clusterings to planted clusterings or known metadata.
53 , and access and merge public and restricted metadata.
54 8 annotation (GFF) and assembly (FASTA) file metadata.
55 standards, capturing, curating, and sharing metadata.
56 retrieve and merge the controlled-access HMP metadata.
57 rammatically search, filter and download all metadata.
59 ions" in the form of standardized experiment metadata about the specimen source analyzed and marker g
60 nical, pathological, survival, and treatment metadata across breast, ovarian, and pancreatic cancer d
62 e database to match unknowns with biological metadata across over 110,000 samples; MS-DIAL 2.0, a sof
63 sue Expression (GTEx) datasets and technical metadata along with RNA-seq datasets from other studies
64 uthoritative repository for all INSDC sample metadata, an ELIXIR Deposition Database for Biomolecular
71 ting microbial population genomics with host metadata and demonstrate how host environmental pressure
72 consortium implements a mode of centralized metadata and distributed raw data management, which prom
73 consistent, controlled approach for handling metadata and experimental data collection, collation and
74 els for age, gender, and tissue from textual metadata and GEO data using both a heuristic approach as
75 configurations to be defined for experiment metadata and local data collection, and handles metadata
76 software provides a user interface to query metadata and obtain standardized results in an exportabl
77 these datasets, we collected the associated metadata and organized them in a database called RNASeqM
78 CAA-related articles from PubMed, collected metadata and performed productivity analysis, copublicat
82 cs, proteomics, metabolomics) data, detailed metadata and radiation dosimetry for a variety of model
84 ata set, including previous works, comprised metadata and sequences of 219 unique strains sampled bet
86 lighted a widespread tendency for inadequate metadata and uncertainty reporting in the published stud
88 ffectively integrate sequence data, assembly metadata, and annotation to support both genome and comm
89 encourages researchers to share sequence and metadata, and fosters collaboration between researchers
90 ormation on provenance, authorship and other metadata, and is flexible enough to include any kind of
92 16S taxonomic abundance data, public patient metadata, and phylogenetic trees as a single data object
94 analyses on the bacterial data, viral data, metadata, and the combination of all three datasets to d
95 scrapes user selected accession numbers and metadata, and then, with one click, users can submit thi
96 searches of expression images via associated metadata; and new displays that combine image data and t
97 ings of the experiment along with associated metadata; and the Metabolite Page, which provides a list
99 t dozens of mislabeled samples and ambiguous metadata annotations, representing ~1% of ENCODE dataset
102 ucially, the method does not assume that the metadata are correlated with the communities we are tryi
108 to automate the sequencing of glycans using metadata-assisted glycan sequencing, which combines MS a
109 ess repository for geographic and ecological metadata associated with biosamples and genetic data.
113 paradigm of automatically adding annotation metadata based on reference sequence checksums can great
114 des multigene query searching with iterative metadata-based search refinement and extensive visualiza
115 quality and validity of CD spectral data and metadata, both as an aid to data collection and processi
116 xplored complex interactions between patient metadata, brain morphometry, and neurological disease.
118 tial-temporal information and other relevant metadata, but unfortunately these attributes are often m
122 ression, Pathway Details pages, experimental metadata checklists, experiment summary statistics and m
124 tforward approaches for consistent, flexible metadata collection and linkage of related experimental
125 , including finding chemicals and associated metadata, comparing the shared and different chemicals b
127 d database-fueled investigations have placed metadata curation in the hands of researchers with littl
128 ata integration approaches focus on aligning metadata, data integration can be achieved by abstractin
129 ion exists and correctly uses or ignores the metadata depending on whether they contain useful inform
130 including both the sequences themselves and metadata describing their abundance, assembly, predicted
131 quality, consistency and use, MOPED includes metadata detailing experimental design and analysis meth
132 on of both general and neuroscience-specific metadata dimensions, such as animal species, brain regio
136 t data be accompanied by detailed contextual metadata (e.g., specimen, spatial-temporal, phenotypic c
138 stic recordings supported by spatio-temporal metadata enable rapid, non-invasive species identificati
140 vides a combination of experimental data and metadata, examples of pre-computed analysis, step-by-ste
141 rail of all changes made by users and allows metadata export in comma separated value (CSV) format fo
142 sion profile, opening the door for automatic metadata extraction and facilitating the re-use of plant
143 s users to flexibly search and filter on any metadata field to quickly find the sequencing datasets t
145 74 454 Analysis Projects with a total of 541 metadata fields, of which 80 are based on controlled voc
146 ting the content of the archive, an optional metadata file adding information about the archive and i
147 ages that can automatically generate ISA-Tab metadata file stubs from raw XML metabolomics data files
149 ent chemicals between groups of samples, and metadata-filtered, repository-scale molecular networking
150 base of normalized SRA human sample-specific metadata following a schema inspired by the metadata org
151 st importantly will be encouraged to publish metadata following standards and ontologies that make th
153 ible file format, which can capture detailed metadata for all aspects of complex biological experimen
154 t provides a framework to store and retrieve metadata for data analysis and integration, and therefor
155 ts, we first extract labels from the textual metadata for each GEO RNA dataset and evaluate the perfo
157 Public databases rely on the user to provide metadata for each submission that is prone to user error
159 142 complete rotavirus genome sequences and metadata from 151 clinical specimens collected in Nashvi
162 nalyzing short read sequences and associated metadata from cancer patients to better understand the h
163 environment, systemic immunity with clinical metadata from clinical trials, and other databases.
165 , easy-to-use interface to download data and metadata from multiple repositories, including the Seque
166 16S ribosomal RNA (rRNA) gene sequences and metadata from published studies to examine alpha-diversi
168 g granulocyte counts onto the 10 clusters as metadata further defined 3 of these as highly eosinophil
169 ximeta that performs numerous annotation and metadata gathering tasks automatically on behalf of user
171 of data generated and its complex associated metadata have also created data storage and integration
172 cations, our system performed best using the metadata heuristic (0.54 Precision, 0.89 Recall and 0.68
174 lize and evaluate data in the context of its metadata, honing-in on groups of samples or genes based
181 at supports the integration of heterogeneous metadata in model annotations and provides a user-friend
182 the location of infected hosts for enriching metadata in nucleotide sequences repositories like Natio
186 s enriched with local molecular and cellular metadata, in concert with more nuanced representations o
188 crobial changes of our subjects, significant metadata included age of the subject, and the age by whi
190 e binned by their AMR phenotypes, as well as metadata including minimum inhibitory concentrations.
191 ing retinal fundus images, study participant metadata (including race or ethnicity, age, sex and bloo
192 ealing with more complicated experiments and metadata, including batch effects, normalization, tempor
193 can be queried using a variety of associated metadata, including habitat type and geographic location
195 ions Information Worldwide (CCINFO) provides metadata information on 708 culture collections from 72
196 n perform queries on the API using different metadata information such as sample details (species, ti
197 Searching and filtering is also possible by metadata information, such as sample details (e.g. speci
202 hive, cleans and parses messy, user-provided metadata into a structured, standard-compliant database
205 g methodology, we demonstrate that telephone metadata is densely interconnected, can trivially be rei
206 he availability of computationally tractable metadata is especially important for the effective autom
207 Reporting specific modelling methods and metadata is essential to the reproducibility of ecologic
208 with genomic nucleotide sequence data, this metadata is growing rapidly and becoming a valuable reso
210 (e.g. DOIs, PubMed IDs, ISBNs, URLs), whose metadata is then retrieved and converted to a user-speci
211 However, information about each experiment (metadata) is in the format of an open-ended, non-standar
212 d is applicable to any microbiome taxa count/metadata, is automatically fit, and intuitively interpre
213 orators with incorrect or missing annotation metadata, it becomes difficult or impossible to reproduc
214 usable (FAIR), and aligned with the existing metadata languages (e.g. ecological meta-data language).
215 thods for identifying errors in the provided metadata, leading to the potential for error propagation
216 d when pathogen genetic diversity is low and metadata limited, we propose an analytical approach that
217 s can be extracted directly from the textual metadata, many of the data available do not contain expl
221 he ensuing regions functionally by employing metadata of a large-scale neuroimaging database (p < 0.0
222 uced a common data format for recordings and metadata of cellular electrophysiology and optical imagi
223 ARQL, the query language for RDF, to capture metadata of files in the TCGA open-access HTTP directory
225 developed a framework to predict the missing metadata of gene expression datasets to maximize their r
226 urately has become increasingly important as metadata of many types, often assembled in hierarchies,
227 systematically store raw experimental data, metadata of the experimental design, scripts of the quan
229 ure metadata substantially (capturing 90% of metadata on assay and sample levels), is much less prone
230 apped to a single, consistent standard, with metadata on contributors, geographic location, measureme
231 from the UK Biobank, the fundus-image-only, metadata-only and combined models predicted haemoglobin
232 community, it is often hampered by a lack of metadata or differences in annotation styles of differen
233 ied by therapeutic name, by a combination of metadata, or by variable domain sequence - returning all
235 h-throughput data production, and systematic metadata organization to enable cross-laboratory integra
236 sion data while taking into account multiple metadata parameters; and, finally, to perform a meta-ana
237 ations, their interactions, and diverse cell metadata, Perturb-seq dramatically increases the scope o
238 ard to store two- or three-dimensional image metadata, plant and root properties and geometries, cont
239 sers to create a local database for pathogen metadata, populate it with data from NCBI, easily query
240 user-provided sequence data with associated metadata, predictions of novel variant proteins, annotat
241 The iMAP tool wraps functionalities for metadata profiling, quality control of reads, sequence p
243 nsive microbiome data sets and corresponding metadata provides a vast, underused resource for the mic
244 line has its own page containing descriptive metadata, quality information, and links to archived ass
245 upload marker gene sequences and associated metadata; reads are quality filtered and assigned to bot
246 ed States and abroad, is that communications metadata receives substantially less protection than com
249 ide sequences, they do not accession all the metadata required for ecological or evolutionary analyse
250 t support of new data types including genome metadata, RNA-seq, proteomics, synteny, and large-scale
251 ewly designed query interface enables global metadata search with autosuggest across all annotations
252 s, we constructed a 1,133-HCC transcriptomic metadata set and validated findings in a publically avai
253 ata, the number of DE genes decreased in all metadata sets with the DSLR2w(P6)weighted and the w(P6)w
254 e three components of any given input, i.e., metadata, short reads and quality score strings, are fir
255 nce of freely available alternative data and metadata sources, and lax regulation of collecting publi
256 ng with improving study design, data access, metadata standardization, and analysis tools, will enabl
259 of PDX repositories and the use of different metadata standards for describing model characteristics
260 many metadata standards developed by various metadata standards initiatives have arisen; the Genomic
261 t EMBL-EBI provides a central hub for sample metadata storage and linkage to other EMBL-EBI resources
262 nmrML2ISA reduces the time needed to capture metadata substantially (capturing 90% of metadata on ass
266 atches deviate in sequence, and accompanying metadata, such as intended target and investigated condi
267 condition information provided with the AGP metadata, such as patient age, dietary habits, or health
268 network based on character state changes in metadata, such as place or source of isolation, mapped o
269 t-like format, mzTab-M captures experimental metadata, summary information on small molecules across
273 improve access to ENCODE data by relying on metadata that allow reusability and reproducibility of t
274 owse and search the ENCODE data based on the metadata that describe the assays as well as summaries o
275 ntemporaneous physician reports that include metadata that might be expected to show a measurable cor
276 the diverse variant annotations and genotype metadata, there is a need for fast, flexible methods ena
279 llow diverse source of experimental data and metadata to be systematically incorporated into the mode
280 led approach that combines a network and its metadata to detect communities more accurately than can
282 roach highlights the potential for molecular metadata to inform highly-multiplexed single-cell analys
284 tandards, formats and protocols for data and metadata to make it easier for individuals and organisat
286 tes plant phenotypic data with environmental metadata to support experimental designs and to gain a m
287 ical experiments, comprehensive experimental metadata tracking - which comprises experiment, reagent,
290 s of OSCI is its application in representing metadata types associated with various stem cell investi
291 includes a PostgreSQL database that captures metadata useful for disease outbreak investigations, and
296 ome sequencing (WGS) analysis and geographic metadata, we traced the origins of Salmonella Bareilly i
299 ing ecologically and evolutionarily relevant metadata with publicly archived sequence data in a struc
300 enotype and phenotype together with clinical metadata within a machine-learning framework, we found s