ArticleBMC genomics2012
NG6: Integrated next generation sequencing storage and processing environment.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
29 citing papers in PubMed.
- SDR enzymes oxidize specific lipidic alkynylcarbinols into cytotoxic protein-reactive species.eLife · 2022Article
- A Comprehensive Assessment of the Secretome Responsible for Host Adaptation of the Legume Root PathogenJournal of fungi (Basel, Switzerland) · 2022Article
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- Arctic charr brain transcriptome strongly affected by summer seasonal growth but only subtly by feed deprivation.BMC genomics · 2019Article
- Transcriptomic analysis reveals specific metabolic pathways of enterohemorrhagic Escherichia coli O157:H7 in bovine digestive contents.BMC genomics · 2018Article
- Molecular and cellular characterization of apoptosis in flat oyster a key mechanisms at the heart of host-parasite interactions.Scientific reports · 2018Article
- Genetic and transcriptomic analyses provide new insights on the early antiviral response to VHSV in resistant and susceptible rainbow trout.BMC genomics · 2018Article
- Parallels between experimental and natural evolution of legume symbionts.Nature communications · 2018Article
- Genomics analysis of Aphanomyces spp. identifies a new class of oomycete effector associated with host adaptation.BMC biology · 2018Article
- Genomic repeats, misassembly and reannotation: a case study with long-read resequencing of Porphyromonas gingivalis reference strains.BMC genomics · 2018Article
- Characterization of plasmids harboring blaCTX-M and blaCMY genes in E. coli from French broilers.PloS one · 2018Article
- Draft Genome Sequence of EnterohemorrhagicGenome announcements · 2017Article
- De novo transcriptome sequencing and analysis of freshwater snail (Radix balthica) to discover genes and pathways affected by exposure to oxazepam.Ecotoxicology (London, England) · 2017Article
- Draft genome sequence and characterization of commensalStandards in genomic sciences · 2017Article
- Article
- Complete Genome Sequence of Lactococcus lactis subsp. lactis A12, a Strain Isolated from Wheat Sourdough.Genome announcements · 2016Article
- Jflow: a workflow management system for web applications.Bioinformatics (Oxford, England) · 2016Article
- Article
- The Characterization of Novel Tissue Microbiota Using an Optimized 16S Metagenomic Sequencing Pipeline.PloS one · 2015Article
- De Novo sequencing and transcriptome analysis for Tetramorium bicarinatum: a comprehensive venom gland transcriptome analysis from an ant species.BMC genomics · 2014Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundNext generation sequencing platforms are now well implanted in sequencing centres and some laboratories. Upcoming smaller scale machines such as the 454 junior from Roche or the MiSeq from Illumina will increase the number of laboratories hosting a sequencer. In such a context, it is important to provide these teams with an easily manageable environment to store and process the produced reads.
resultsWe describe a user-friendly information system able to manage large sets of sequencing data. It includes, on one hand, a workflow environment already containing pipelines adapted to different input formats (sff, fasta, fastq and qseq), different sequencers (Roche 454, Illumina HiSeq) and various analyses (quality control, assembly, alignment, diversity studies,…) and, on the other hand, a secured web site giving access to the results. The connected user will be able to download raw and processed data and browse through the analysis result statistics. The provided workflows can easily be modified or extended and new ones can be added. Ergatis is used as a workflow building, running and monitoring system. The analyses can be run locally or in a cluster environment using Sun Grid Engine.
conclusionsNG6 is a complete information system designed to answer the needs of a sequencing platform. It provides a user-friendly interface to process, store and download high-throughput sequencing data.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.