heatmap (Plotly Technologies Inc)

About

News

Press Release

Team

Advisors

Partners

Contact

Bioz Stars

Bioz vStars

Buy from Supplier

Structured Review

Plotly Technologies Inc heatmap

( A ) <t>Heatmap</t> of LC/MS-analyzed 122 polar metabolites from double thymidine block (DTB)-synchronized HeLa cells. Analytes are clustered and colored by metabolic pathway. Carbamoyl-aspartate, dihydroorotate, and orotate are highlighted in purple. The presented result is in logarithmic ratio (log2 fold change relative to DTB) of the mean of biological triplicate (n = 3, biological replicates). ( B ) De novo pyrimidine biosynthesis pathway. Carbons are depicted in a circle; nitrogens, square; ribose, pentagon; phosphate groups, a P in a circle; Amide- 15 N of glutamine, red. ( C ) Relative changes of intracellular amide- 15 N glutamine-derived 15 N-dihydroorotate concentration after DTB release (left) or post-nocodazole (NOC) release (right). 1 hour amide- 15 N glutamine labeling. 15 N-labeled dihydroorotate, pink, unlabeled dihydroorotate, black. Data are presented as mean (n = 3, biological replicates) +/− SD (standard deviation). Two-tailed Student t-test statistical analyses applied. ( D ) Genomic incorporation of EdU. Uridine (100 μg/mL) PALA (300 μM, 24 h) as indicated. ( E ) Relative intracellular dihydroorotate concentration in wild-type HeLa, sgCAD, and wild-type CAD-reconstituted sgCAD cells. Data are presented as mean +/− SD (n = 3, biological replicates). Two-tailed Student t-test statistical analyses applied. Two-tailed Student’s t-test statistical analyses applied. ( F ) Cell proliferation of sgCAD cells upon supplementation of 500 μM of indicated molecules. 4 days of supplementation duration. Data are presented as mean +/− SD (n = 3, technical replicates, 3 independent experiments). Two-tailed Student’s t-test statistical analyses applied. ( G ) Cell proliferation of wild-type HeLa, sgCAD, and wild-type CAD-reconstituted sgCAD cells upon uridine supplementation, as indicated. Data are presented as mean +/− SD (n = 3, technical replicates, 2 independent experiments). Two-tailed Student’s t-test statistical analyses applied. Compared to the cells with 0 μg/mL. ( H ) Immunoblotting of lysates from sgCAD at indicated time after uridine withdrawal or uridine supplementation (100 μg/mL). P-values denoted as * (* for p-value < 0.1; **, < 0.01; ***, < 0.001; ****, < 0.0001) or ns (not significant).

Heatmap, supplied by Plotly Technologies Inc, used in various techniques. Bioz Stars score: 86/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/data+visualization+dashboard+tools+plotly+dash/heatmap/pmc10064490-618-6-7
Average 86 stars, based on 1 article reviews

heatmap - by Bioz Stars, 2026-11

86/100 stars

Images

1) Product Images from "Allosteric regulation of CAD modulates de novo pyrimidine synthesis during the cell cycle"

Article Title: Allosteric regulation of CAD modulates de novo pyrimidine synthesis during the cell cycle

Journal: Nature metabolism

doi: 10.1038/s42255-023-00735-9

( A ) Heatmap of LC/MS-analyzed 122 polar metabolites from double thymidine block (DTB)-synchronized HeLa cells. Analytes are clustered and colored by metabolic pathway. Carbamoyl-aspartate, dihydroorotate, and orotate are highlighted in purple. The presented result is in logarithmic ratio (log2 fold change relative to DTB) of the mean of biological triplicate (n = 3, biological replicates). ( B ) De novo pyrimidine biosynthesis pathway. Carbons are depicted in a circle; nitrogens, square; ribose, pentagon; phosphate groups, a P in a circle; Amide- 15 N of glutamine, red. ( C ) Relative changes of intracellular amide- 15 N glutamine-derived 15 N-dihydroorotate concentration after DTB release (left) or post-nocodazole (NOC) release (right). 1 hour amide- 15 N glutamine labeling. 15 N-labeled dihydroorotate, pink, unlabeled dihydroorotate, black. Data are presented as mean (n = 3, biological replicates) +/− SD (standard deviation). Two-tailed Student t-test statistical analyses applied. ( D ) Genomic incorporation of EdU. Uridine (100 μg/mL) PALA (300 μM, 24 h) as indicated. ( E ) Relative intracellular dihydroorotate concentration in wild-type HeLa, sgCAD, and wild-type CAD-reconstituted sgCAD cells. Data are presented as mean +/− SD (n = 3, biological replicates). Two-tailed Student t-test statistical analyses applied. Two-tailed Student’s t-test statistical analyses applied. ( F ) Cell proliferation of sgCAD cells upon supplementation of 500 μM of indicated molecules. 4 days of supplementation duration. Data are presented as mean +/− SD (n = 3, technical replicates, 3 independent experiments). Two-tailed Student’s t-test statistical analyses applied. ( G ) Cell proliferation of wild-type HeLa, sgCAD, and wild-type CAD-reconstituted sgCAD cells upon uridine supplementation, as indicated. Data are presented as mean +/− SD (n = 3, technical replicates, 2 independent experiments). Two-tailed Student’s t-test statistical analyses applied. Compared to the cells with 0 μg/mL. ( H ) Immunoblotting of lysates from sgCAD at indicated time after uridine withdrawal or uridine supplementation (100 μg/mL). P-values denoted as * (* for p-value < 0.1; **, < 0.01; ***, < 0.001; ****, < 0.0001) or ns (not significant).

Figure Legend Snippet: ( A ) Heatmap of LC/MS-analyzed 122 polar metabolites from double thymidine block (DTB)-synchronized HeLa cells. Analytes are clustered and colored by metabolic pathway. Carbamoyl-aspartate, dihydroorotate, and orotate are highlighted in purple. The presented result is in logarithmic ratio (log2 fold change relative to DTB) of the mean of biological triplicate (n = 3, biological replicates). ( B ) De novo pyrimidine biosynthesis pathway. Carbons are depicted in a circle; nitrogens, square; ribose, pentagon; phosphate groups, a P in a circle; Amide- 15 N of glutamine, red. ( C ) Relative changes of intracellular amide- 15 N glutamine-derived 15 N-dihydroorotate concentration after DTB release (left) or post-nocodazole (NOC) release (right). 1 hour amide- 15 N glutamine labeling. 15 N-labeled dihydroorotate, pink, unlabeled dihydroorotate, black. Data are presented as mean (n = 3, biological replicates) +/− SD (standard deviation). Two-tailed Student t-test statistical analyses applied. ( D ) Genomic incorporation of EdU. Uridine (100 μg/mL) PALA (300 μM, 24 h) as indicated. ( E ) Relative intracellular dihydroorotate concentration in wild-type HeLa, sgCAD, and wild-type CAD-reconstituted sgCAD cells. Data are presented as mean +/− SD (n = 3, biological replicates). Two-tailed Student t-test statistical analyses applied. Two-tailed Student’s t-test statistical analyses applied. ( F ) Cell proliferation of sgCAD cells upon supplementation of 500 μM of indicated molecules. 4 days of supplementation duration. Data are presented as mean +/− SD (n = 3, technical replicates, 3 independent experiments). Two-tailed Student’s t-test statistical analyses applied. ( G ) Cell proliferation of wild-type HeLa, sgCAD, and wild-type CAD-reconstituted sgCAD cells upon uridine supplementation, as indicated. Data are presented as mean +/− SD (n = 3, technical replicates, 2 independent experiments). Two-tailed Student’s t-test statistical analyses applied. Compared to the cells with 0 μg/mL. ( H ) Immunoblotting of lysates from sgCAD at indicated time after uridine withdrawal or uridine supplementation (100 μg/mL). P-values denoted as * (* for p-value < 0.1; **, < 0.01; ***, < 0.001; ****, < 0.0001) or ns (not significant).

Techniques Used: Activity Assay, Liquid Chromatography with Mass Spectroscopy, Blocking Assay, Derivative Assay, Concentration Assay, Labeling, Standard Deviation, Two Tailed Test, Western Blot

other:

Article Title: Integrative Taxonomy of Armeria Taxa (Plumbaginaceae) Endemic to Sardinia and Corsica.
Article Snippet: Based on this matrix, we created a heatmap from the plotly package (version 2.4.26) [97].

Article Title: Bibliometric analysis of Naunyn-Schmiedeberg's Archives of Pharmacology (1947-1974).
Article Snippet: Furthermore, to offer a granular view of the contributions within Germany, a heat map was created using Plotly in Python.

Article Title: Allosteric regulation of CAD modulates de novo pyrimidine synthesis during the cell cycle
Article Snippet: Clustering was performed using agglomerative hierarchical clustering as implemented by the Plotly graphing package through their dendrogram function (plotly.figurefactory).

Construct:

Article Title: Tradeoffs between phage resistance and nitrogen fixation drive the evolution of genes essential for cyanobacterial heterocyst functionality
Article Snippet: .. Genes heatmap was constructed from the resulting hits using the same mentioned parameters with the Python package Plotly [ ]. ..

Generated:

Article Title: Metabolomic Signatures Predict Seven-Year Mortality in Clinically Stable COPD Patients.
Article Snippet: .. To visualize these distances and facilitate outlier detection, a heatmap and hierarchical clustering dendrogram were generated using Seaborn (version 0.12.2) and Plotly (version 5.15.0). ..

Review