Genomic Database Searching

scientific article published on January 2017

Genomic Database Searching is …
instance of (P31):
scholarly articleQ13442814

External links are
P356DOI10.1007/978-1-4939-6622-6_10
P698PubMed publication ID27896724

P2093author name stringJames R A Hutchins
P2860cites workNext generation sequencing technology: Advances and applications.Q53509800
Database resources of the National Center for Biotechnology InformationQ57444435
Initial sequencing and analysis of the human genomeQ21045365
Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciencesQ21092859
Modernizing reference genome assembliesQ21145769
Ultrafast and memory-efficient alignment of short DNA sequences to the human genomeQ21183894
AceView: a comprehensive cDNA-supported gene and transcripts annotationQ21184141
A short guide to long non-coding RNA gene nomenclatureQ21245445
Naming 'junk': human non-protein coding RNA (ncRNA) gene nomenclatureQ21245452
HIVE-hexagon: high-performance, parallelized sequence alignment for next-generation sequencing data analysisQ21559461
A turning point in cancer research: sequencing the human genomeQ22065518
What is a gene, post-ENCODE? History and updated definitionQ22065737
The Sequence of the Human GenomeQ22065842
The African coelacanth genome provides insights into tetrapod evolutionQ22122139
An integrated map of genetic variation from 1,092 human genomesQ22122153
Genome analysis of the platypus reveals unique signatures of evolutionQ22122225
Nucleotide sequence of bacteriophage φX174 DNAQ22122422
Finishing the euchromatic sequence of the human genomeQ22122488
The DDBJ Japanese Genotype-phenotype Archive for genetic and phenotypic human dataQ24426218
Content discovery and retrieval services at the European Nucleotide ArchiveQ24426457
The Ensembl core software librariesQ24563921
Current status and new features of the Consensus Coding Sequence databaseQ24567717
GENCODE: the reference human genome annotation for The ENCODE ProjectQ24608743
International network of cancer genome projectsQ24611474
A map of human genome variation from population-scale sequencingQ24617794
The Pfam protein families databaseQ24619716
Mapping short DNA sequencing reads and calling variants using mapping quality scoresQ24644612
Fast and accurate short read alignment with Burrows-Wheeler transformQ24653853
The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasetsQ24655245
MATCH: A tool for searching transcription factor binding sites in DNA sequencesQ24677633
BLAT—The BLAST-Like Alignment ToolQ24682492
Basic local alignment search toolQ25938991
Mutational signatures: the patterns of somatic mutations hidden in cancer genomesQ26850125
Untangling the web: the diverse functions of the PIWI/piRNA pathwayQ26851359
Long noncoding RNAs: past, present, and futureQ26991873
The structure, function and evolution of proteins that bind DNA and RNAQ27003938
EMBOSS: the European Molecular Biology Open Software SuiteQ27860491
Genome sequence of the nematode C. elegans: a platform for investigating biologyQ27860527
Sequencing technologies - the next generationQ27860568
Fast gapped-read alignment with Bowtie 2Q27860699
Whole-genome random sequencing and assembly of Haemophilus influenzae RdQ27860765
Prediction of complete gene structures in human genomic DNAQ27860780
The BioMart community portal: an innovative alternative to large, centralized data repositoriesQ27949361
RSAT 2015: Regulatory Sequence Analysis Tools.Q35810270
Databases and resources for human small non-coding RNAsQ36405298
UCSC genome browser tutorialQ37178152
DNA nucleotide sequence restricted by the RI endonucleaseQ37501105
Personalized medicine: progress and promiseQ37896642
Beyond transposons: the epigenetic and somatic functions of the Piwi-piRNA mechanismQ38086999
Diversifying microRNA sequence and functionQ38117040
Genomics and personalised whole-of-life healthcare.Q38209771
Single cell sequencing approaches for complex biological systemsQ38228696
Single-cell sequencing technologies: current and future.Q38273389
Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modulesQ38360732
Structural basis of DNA-protein recognitionQ38685180
Chromosome bands--flavours to savourQ40830908
The complete code for a eukaryotic cell. Genome sequencingQ41110688
Genes, disease and medicineQ41276210
MEME-LaB: motif analysis in clustersQ41556168
GtRNAdb: a database of transfer RNA genes detected in genomic sequenceQ41789848
Savant Genome Browser 2: visualization and analysis for population-scale genomicsQ42126101
piRNABank: a web resource on classified and clustered Piwi-interacting RNAsQ42150407
New insights into replication origin characteristics in metazoansQ42559394
Relationship between genome and epigenome--challenges and requirements for future researchQ42712507
Galaxy LIMS for next-generation sequencing.Q44986585
Genomes of 100,000 people will be sequenced to create an open access research resourceQ44990963
The UCSC Known GenesQ46070887
Human genome at ten: Life is complicatedQ46201576
Genomics. Celera to end subscriptions and give data to public GenBankQ48139079
Databases for lncRNAs: a comparative evaluation of emerging toolsQ34363848
Cloud-based bioinformatics workflow platform for large-scale next-generation sequencing analysesQ34372209
The Vertebrate Genome Annotation browser 10 years onQ34390458
lncRNAdb v2.0: expanding the reference database for functional long noncoding RNAsQ34444320
The Genomes OnLine Database (GOLD) v.5: a metadata management system based on a four level (meta)genome project classification.Q34445059
Genenames.org: the HGNC resources in 2015Q34445762
piRNAQuest: searching the piRNAome for silencersQ34487194
The International Nucleotide Sequence Database Collaboration.Q34488263
Integrative annotation of chromatin elements from ENCODE dataQ34503932
A comprehensive evaluation of alignment algorithms in the context of RNA-seqQ34540663
piRBase: a web resource assisting piRNA functional study.Q34568399
FIMO: scanning for occurrences of a given motifQ34729603
The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation.Q34774140
Regulation of transcription by long noncoding RNAsQ34846003
RefSeq: an update on mammalian reference sequencesQ35047930
Ten years of next-generation sequencing technologyQ35222334
Gene: a gene-centered information resource at NCBI.Q35253405
FlyBase: introduction of the Drosophila melanogaster Release 6 reference genome assembly and large-scale migration of genome annotationsQ35253618
NCBI viral genomes resourceQ35254405
RNAcentral: an international database of ncRNA sequencesQ35254982
Promotion of parallel DNA quadruplexes by a yeast telomere binding protein: a circular dichroism study.Q35655409
Comparison of GENCODE and RefSeq gene annotation and the impact of reference geneset on variant effect predictionQ35673975
Orchestrating high-throughput genomic analysis with BioconductorQ28084527
The Bio* toolkits--a brief overviewQ28201729
JBrowse: a next-generation genome browserQ28250550
Identification of the remains of King Richard IIIQ28253021
ModuleMaster: a new tool to decipher transcriptional regulatory networksQ28261122
Integrative Genomics Viewer (IGV): high-performance genomics data visualization and explorationQ28264933
SOAP: short oligonucleotide alignment programQ28266228
The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloudQ28290043
Stampy: a statistical algorithm for sensitive and fast mapping of Illumina sequence readsQ28296838
NextGenMap: fast and accurate read mapping in highly polymorphic genomesQ28297325
Integrative analysis of the Caenorhabditis elegans genome by the modENCODE projectQ28301622
The complete genome sequence of a Neanderthal from the Altai MountainsQ28304347
Rfam 12.0: updates to the RNA families databaseQ28650460
miRBase: annotating high confidence microRNAs using deep sequencing dataQ28660701
UniProt: a hub for protein informationQ29547457
A global map of p53 transcription-factor binding sites in the human genomeQ29614400
Ensembl 2015Q29615570
Identification of functional elements and regulatory circuits by Drosophila modENCODEQ29617551
RNA sequencing: advances, challenges and opportunitiesQ29619605
BioStar: An Online Question & Answer Resource for the Bioinformatics CommunityQ30002308
What's that gene (or protein)? Online resources for exploring functions of genes, transcripts, and proteins.Q30361280
SEQanswers: an open access community for collaboratively decoding genomes.Q30485378
Tools for mapping high-throughput sequencing dataQ30573120
Ensembl Genomes 2013: scaling up access to genome-wide dataQ30684728
Analysis of next-generation sequencing data using GalaxyQ30803414
Bioinformatic analysis of proteomics dataQ30836919
The Ensembl REST API: Ensembl Data for Any LanguageQ30853774
The UCSC Genome Browser database: 2015 updateQ30872157
The Ruby UCSC API: accessing the UCSC genome database using RubyQ31096160
MOSAIK: a hash-based algorithm for accurate next-generation sequencing short-read mappingQ31153287
The completion of the Mammalian Gene Collection (MGC).Q33505160
Genomic databases and resources at the National Center for Biotechnology InformationQ33539862
Ensembl BioMarts: a hub for data retrieval across taxonomic spaceQ33969847
Landscape of next-generation sequencing technologies.Q34187217
Using Galaxy to perform large-scale interactive data analysesQ34304668
P407language of work or nameEnglishQ1860
P304page(s)225-269
P577publication date2017-01-01
P1433published inMethods in Molecular BiologyQ15752859
P1476titleGenomic Database Searching
P478volume1525

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