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68 results for “Pseudomonas putida”
microSPLiT single-cell and bulk transcriptomes analysed with STAR - Pseudomonas putida KT2440/pKJK5
<h3>Description of the data and file structure</h3> <p>Data are displayed as 2 files</p> <p><strong>1. Bulk transcriptomics results (Bulk_STAR.csv)</strong></p> <p>STAR processed data combined in a gene x sample table</p> <p><strong>2. microSPLiT single-cell results (microSPLiT_STARsolo.xlsx)</strong></p> <p>STARsolo processed data combined as sublibraries’ gene associated transcript numbers (UMIs) per cell for the control (E1) and experiment (E2) sublibraries (F1-8) - (1 sublibrary per table).</p> <div> <p> </p> </div>
Pseudomonas putida BIGb0470
This is one of the Wormbiome database archive files.<br>This entry includes all the genome annotation files related to Pseudomonas putida BIGb0470, a\(n\) Gammaproteobacteria.<br>The Wormbiome collection is an online database dedicated to centralizing all the information related to bacteria associated with C. elegans. More information on <a href="https://bitbucket.org/the-samuel-lab/wbm_scripts/src/master/DOCS/Annotations_output.md" target="_blank" rel="noopener noreferrer">the documentation page</a>.<br><br>
Pseudomonas putida JUb85
This is one of the Wormbiome database archive files.<br>This entry includes all the genome annotation files related to Pseudomonas putida JUb85, a\(n\) Gammaproteobacteria.<br>The Wormbiome collection is an online database dedicated to centralizing all the information related to bacteria associated with C. elegans. More information on <a href="https://bitbucket.org/the-samuel-lab/wbm_scripts/src/master/DOCS/Annotations_output.md" target="_blank" rel="noopener noreferrer">the documentation page</a>.<br><br>
Data from: Automation and machine learning drive rapid optimization of isoprenol production in Pseudomonas putida
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Biosensor-driven strain engineering reveals key cellular processes for maximizing isoprenol production in <em>Pseudomonas putida</em>
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Dataset - Large-scale kinetic metabolic models of Pseudomonas putida KT2440 for consistent design of metabolic engineering strategies
<p>Models developed for the manuscript “Large-scale kinetic metabolic models of<em> Pseudomonas putida</em> for consistent design of metabolic engineering strategies" by M. Tokic, V. Hatzimanikatis, and L. Miskovic.</p> <ul> <li>Thermodynamically curated and gap-filled genome-scale model of <em>P. putida</em> iJN1411, iJN1411cur. <ul> <li>CuratediJN1411GEM.mat</li> </ul> </li> <li>Three systematically reduced stoichiometric models of <em>P. putida</em>: <ul> <li>D1 model, RedModelD1SminP2.mat</li> <li>D2 model, RedModelD2SminP2.mat - used for the studies performed in the manuscript</li> <li>D3 model, RedModelD3SminP2.mat</li> </ul> </li> </ul> <p> </p>
Data from: Pseudomonas putida and Pseudomonas fluorescens species group recovery from human homes varies seasonally and by environment
By shedding light on variation in time as well as in space, long-term biogeographic studies can help us define organisms' distribution patterns and understand their underlying drivers. Here we examine distributions of Pseudomonas in and around 15 human homes, focusing on the P. putida and P. fluorescens species groups. We describe recovery from 10,941 samples collected during up to 8 visits per home, occurring on average 2.6 times per year. We collected a mean of 141 samples per visit, from sites in most rooms of the house, from the surrounding yards, and from human and pet occupants. We recovered Pseudomonas in 9.7% of samples, with the majority of isolates being from the P. putida and P. fluorescens species groups (approximately 62% and 23% of Pseudomonas samples recovered respectively). Although representatives of both groups were recovered from every season, every house, and every type of environment sampled, recovery was highly variable across houses and samplings. Whereas recovery of P. putida group was higher in summer and fall than in winter and spring, P. fluorescens group isolates were most often recovered in spring. P. putida group recovery from soils was substantially higher than its recovery from all other environment types, while higher P. fluorescens group recovery from soils than from other sites was much less pronounced. Both species groups were recovered from skin and upper respiratory tract samples from healthy humans and pets, although this occurred infrequently. This study indicates that even species that are able to survive under a broad range of conditions can be rare and variable in their distributions in space and in time. For such groups, determining patterns and causes of stochastic and seasonal variability may be more important for understanding the processes driving their biogeography than the identity of the types of environments in which they can be found.
Data from: Pseudomonas putida and Pseudomonas fluorescens species group recovery from human homes varies seasonally and by environment
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Expression data from Pseudomonas putida KT2440 (RNA-Seq data)
GEO Series GSE24175. Pseudomonas putida KT2440. 2 samples. Type: Expression profiling by high throughput sequencing.
differential gene expression dynamics of Pseudomonas putida KT2440 under matric stress
GEO Series GSE25512. Pseudomonas putida; Pseudomonas putida KT2440. 21 samples. Type: Expression profiling by array.
Characterization of DkaiC mutants of Pseudomonas putida KT2440/2 and Pseudomonas protegens CHA0
GEO Series GSE221044. Pseudomonas putida KT2440; Pseudomonas protegens CHA0; Pseudomonas putida. 22 samples. Type: Expression profiling by high throughput sequencing.
Pseudomonas putida expression profiles at different stress conditions
GEO Series GSE4048. Pseudomonas putida. 6 samples. Type: Expression profiling by array.
Engineering glucose metabolism for enhanced muconic acid production in Pseudomonas putida KT2440
GEO Series GSE198795. Pseudomonas putida KT2440. 9 samples. Type: Expression profiling by high throughput sequencing.
Expression data from Pseudomonas putida KT2440 (Progenika oligo array data)
GEO Series GSE24174. Pseudomonas putida KT2440. 1 samples. Type: Expression profiling by array.
Transcriptome of Pseudomonas putida KT2440 in response to selenite
GEO Series GSE214391. Pseudomonas putida KT2440. 4 samples. Type: Expression profiling by high throughput sequencing.
Transcriptome of Pseudomonas putida KT2440 harboring plasmid RP4 during conjugative transfer
GEO Series GSE146879. Pseudomonas putida KT2440. 16 samples. Type: Expression profiling by array.
Creatine utilization as a sole nitrogen source in Pseudomonas putida KT2440 is transcriptionally regulated by CahR
GEO Series GSE163362. Pseudomonas putida. 12 samples. Type: Expression profiling by high throughput sequencing.
Pseudomonas putida KT2440 transcriptomes for the putidaPRECISE321 study
GEO Series GSE193493. Pseudomonas putida KT2440. 22 samples. Type: Expression profiling by high throughput sequencing.
Global transcriptional responses to osmotic, oxidative, and imipenem stress conditions in Pseudomonas putida
GEO Series GSE85475. Pseudomonas putida KT2440. 21 samples. Type: Expression profiling by high throughput sequencing.
Transcriptional organization and regulation of the Pseudomonas putida flagellar system
GEO Series GSE173832. Pseudomonas putida KT2440. 3 samples. Type: Expression profiling by high throughput sequencing.
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
Allen Brain Atlas
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DANDI Archive for NWB datasets
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International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.