openmm simulation engine Search Results


md engine openmm  (Molecular Dynamics Inc)
86
Molecular Dynamics Inc md engine openmm
Md Engine Openmm, supplied by Molecular Dynamics 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/openmm+simulation+engine/10__7554_slash_elife__93223-102-13-0?v=Molecular+Dynamics+Inc
Average 86 stars, based on 1 article reviews
md engine openmm - by Bioz Stars, 2026-07
86/100 stars
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polychrom engine  (Molecular Dynamics Inc)
86
Molecular Dynamics Inc polychrom engine
a. 3D rendering of chromosome 1 modeled as a polymer chain using <t>polychrom</t> and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.
Polychrom Engine, supplied by Molecular Dynamics 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/openmm+simulation+engine/bio_rxiv__64898__2026__02__05__702638-205-11-14?v=Molecular+Dynamics+Inc
Average 86 stars, based on 1 article reviews
polychrom engine - by Bioz Stars, 2026-07
86/100 stars
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openmm  (Molecular Dynamics Inc)
86
Molecular Dynamics Inc openmm
a. 3D rendering of chromosome 1 modeled as a polymer chain using <t>polychrom</t> and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.
Openmm, supplied by Molecular Dynamics 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/openmm+simulation+engine/pmc12730717-174-8-0?v=Molecular+Dynamics+Inc
Average 86 stars, based on 1 article reviews
openmm - by Bioz Stars, 2026-07
86/100 stars
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openmm 7 7 molecular dynamics software  (Molecular Dynamics Inc)
86
Molecular Dynamics Inc openmm 7 7 molecular dynamics software
a. 3D rendering of chromosome 1 modeled as a polymer chain using <t>polychrom</t> and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.
Openmm 7 7 Molecular Dynamics Software, supplied by Molecular Dynamics 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/openmm+simulation+engine/pmc12661557-114-4-6?v=Molecular+Dynamics+Inc
Average 86 stars, based on 1 article reviews
openmm 7 7 molecular dynamics software - by Bioz Stars, 2026-07
86/100 stars
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seekr2 versatile multiscale milestoning  (Molecular Dynamics Inc)
86
Molecular Dynamics Inc seekr2 versatile multiscale milestoning
a. 3D rendering of chromosome 1 modeled as a polymer chain using <t>polychrom</t> and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.
Seekr2 Versatile Multiscale Milestoning, supplied by Molecular Dynamics 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/openmm+simulation+engine/ojha_anupam_anand__2024__integrating_multiscale_simulations_path_splitting_methods_and_deep_learning_for_enhanced_kinetic_and-1312-2-9?v=Molecular+Dynamics+Inc
Average 86 stars, based on 1 article reviews
seekr2 versatile multiscale milestoning - by Bioz Stars, 2026-07
86/100 stars
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charmm molecular dynamics software package  (Molecular Dynamics Inc)
86
Molecular Dynamics Inc charmm molecular dynamics software package
a. 3D rendering of chromosome 1 modeled as a polymer chain using <t>polychrom</t> and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.
Charmm Molecular Dynamics Software Package, supplied by Molecular Dynamics 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/openmm+simulation+engine/pmc08626863-11-16-17?v=Molecular+Dynamics+Inc
Average 86 stars, based on 1 article reviews
charmm molecular dynamics software package - by Bioz Stars, 2026-07
86/100 stars
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comsol multiphysics  (COMSOL Inc)
90
COMSOL Inc comsol multiphysics
a. 3D rendering of chromosome 1 modeled as a polymer chain using <t>polychrom</t> and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.
Comsol Multiphysics, supplied by COMSOL Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/openmm+simulation+engine/10__1080_slash_15361055__2022__2149210-140-20-22?v=COMSOL+Inc
Average 90 stars, based on 1 article reviews
comsol multiphysics - by Bioz Stars, 2026-07
90/100 stars
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multiphysics  (COMSOL Inc)
90
COMSOL Inc multiphysics
a. 3D rendering of chromosome 1 modeled as a polymer chain using <t>polychrom</t> and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.
Multiphysics, supplied by COMSOL Inc, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
https://www.bioz.com/product/openmm+simulation+engine/10__1080_slash_15361055__2022__2149210-140-23-22?v=COMSOL+Inc
Average 90 stars, based on 1 article reviews
multiphysics - by Bioz Stars, 2026-07
90/100 stars
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Image Search Results


a. 3D rendering of chromosome 1 modeled as a polymer chain using polychrom and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.

Journal: bioRxiv

Article Title: Chromatin architecture and physical constriction cooperate in phenotype switching and cancer cell dissemination

doi: 10.64898/2026.02.05.702638

Figure Lengend Snippet: a. 3D rendering of chromosome 1 modeled as a polymer chain using polychrom and based on the three principal components. Each bead is a 10kb BIN color scaled based on the predicted bead average softness. In grey are beads falling into blacklisted regions. The average chromosome 1 radius of gyration (Rg) per cell line are shown. b. Quantification of Rg changes upon a simulation of constriction of chr1 polymer chain. One-way ANOVA test was performed. Each dot represent a biological replicate. c. Column dot plot quantify the z-score enrichment of melanocytic and mesenchymal Widmer signatures in 501mel Pre and Post migration. Unpaired t-test comparing Pre and Post for each signature was performed. Each dot is representative of an independent biological replicate. d. cis compartments saddle plot of Pre and Post 501mel and MM099 cells. 20% quantiles are shown. e. Scatter plot of compartment switching between Pre and Post cells in 501mel (top) and MM099 (bottom). In black are highlighted significantly switching compartments. f. Melanocytic and mesenchymal Widmer signatures enrichment in MM099 Pre and Post quantified as averaged z-score. Three biological replicates were used. Unpaired statistical t-test was conducted. g. Chromatin diffusion (D e ) quantification in 501mel and MM099 Pre and Post migration. Unpaired t-test was conducted in Pre vs Post and Pre vs Pre pairwise comparisons. Resulted p-values are shown. h. Representative images captured by sSMLM for H3K9me3 and H3K27ac staining in MM099 Pre and Post migration. i. Proliferation curve of 501mel Pre and Post measured as percentage of well confluence from time 0 till 96hrs. Each dot is the average of three biological replicates. Unpaired t-test was conducted to compare the end point. j. Snapshot of GFP fluorescence representing metastatic foci in livers of NSG injected intracardiac with 501mel Pre (n=7) or Post (n=7). k. (Left) Representative images of SKMEL-28 (MEL) post migratory cells upon 12hrs of DMSO (control) or Chaetocin treatment. (Right) SKMEL-28 post migratory relative quantification to the DMSO. Each dot represent an independent biological replicate. Paired t-test was performed. P-values is shown. l. Immunoblot showing H3K9me3, MITF and SOX10 variation upon 24hrs DMSO or Chaetocin (CHAE) treatments in 501mel and SKMEL-28. H3 and VINCULIN serve as internal loading controls. Relative molecular weights are shown on the right.

Article Snippet: Chromatin 3D dynamics were simulated using a modified version of the Polychrom engine (OpenMM-based molecular dynamics, https://github.com/open2c/polychrom ), implemented in our custom pipeline.

Techniques: Polymer, Migration, Diffusion-based Assay, Staining, Fluorescence, Injection, Control, Quantitative Proteomics, Western Blot