Melting behavior of proteins identified in the Escherichia coli meltome and their properties Melting behavior of proteins identified in the Escherichia.

Slides:

Advertisements

Similar presentations

Fus3 is required for deletions of GIM4 and BIM1 to increase cell‐to‐cell variability Fus3 is required for deletions of GIM4 and BIM1 to increase cell‐to‐cell.

Advertisements

GFP‐Sed5p localization defect in sgt2Δ.

Abundance of proteins matching selected subcellular locations and functions in CaCo‐2 cells. Abundance of proteins matching selected subcellular locations.

Overview of the experimental setting.

Thermal proteome profiling in Escherichia coli

Melting behavior of protein complexes

NSAF and GeneChip data have similar distribution properties.

Correlation of log-transformed signal intensity from two Affymetrix microarray hybridizations using platelet RNA. Plotted are those probesets with an average.

Quantitative proteomics reveals daf‐16‐mediated reduction in protein metabolism in long‐lived daf‐2(e1370) mutants. Quantitative proteomics reveals daf‐16‐mediated.

Identification of differentially abundant proteins in the yeast growth phase NSAF dataset. Identification of differentially abundant proteins in the yeast.

Effects of ΔtolC on protein thermostability and abundance

Analysis of in silico flux changes along the exponential growth phase: (A) In silico flux changes from 24 to 36 h, from 36 to 48 h, and from 48 to 60 h.

Characterization of the inferred factor associated with the differentiation state of the cell of origin Characterization of the inferred factor associated.

Data analysis of thermal proteome profiling

NSAF and GeneChip datasets have a similar variance-versus-mean dependence.A–C, the rowMean and the rowS.D. of the abundance values for each transcript.

Validation of the CCE associations by mass spectrometry.

(C–F) Complete interaction networks (representing both baits and preys) for selected groups of baits. (C–F) Complete interaction networks (representing.

Comparative analysis of RNA and protein profiles.

CAR T cell dose and percentages of CAR‐positive cells within CAR T cell products CAR T cell dose and percentages of CAR‐positive cells within CAR T cell.

Correlating protein to mRNA and proteins per mRNA ratios

Coupling immunophenotypes to Drop‐seq data

Characterization of promoters relative to pAGA1

Percentage of proteins identified in envelope membrane extracts according to the purification method and the number of transmembrane domains. Percentage.

Differential conjugation of endogenous SUMO-1 and endogenous SUMO-2/3 to target proteins.A and B, SUMO-1 and SUMO-2 proteins were produced in E coli and.

INDRA Statements constructed from TRIPS NLP extractions, BioPAX, and BEL INDRA Statements constructed from TRIPS NLP extractions, BioPAX, and BEL An identical.

Differences in cellular organization emerge from quantitative proteomic experiments Differences in cellular organization emerge from quantitative proteomic.

Networks of ERK substrates.

Glucose pulses induce brief, heightened protein and nucleic synthesis in non‐dividing Escherichia coli Glucose pulses induce brief, heightened protein.

The limiting, degrading entity hypothesis

Compartment‐specific analysis reveals differences in organelle composition that can be validated by sub‐cellular fractionation Compartment‐specific analysis.

Sensor optimization for thiosulfate and tetrathionate detection in the gut Sensor optimization for thiosulfate and tetrathionate detection in the gut A–F(A.

Experimental approach and reproducibility

Dynamic changes of protein phosphorylation identify ERK1/2 substrates from cytosolic and nuclear compartments. Dynamic changes of protein phosphorylation.

Epitope Mapping Performance using a single peptide microarray.

Relative abundance of proteins identified in MALDI IMS

Bottom-up proteomic characterization of MALDI IMS samples.

The evolutionary conservation of the phosphoproteomes.a, E. coli. b, B. subtilis. The evolutionary conservation of the phosphoproteomes.a, E. coli. b,

Collective shifts of abundance for nuclear and extracellular proteins in colorectal cancer Collective shifts of abundance for nuclear and extracellular.

Target identification of ampicillin and ciprofloxacin

Proteins previously reported in published MALDI IMS studies and their frequency of observation in the present study. Proteins previously reported in published.

Small‐molecule‐driven cell‐type enrichment as a model for intestinal differentiation Small‐molecule‐driven cell‐type enrichment as a model for intestinal.

Distribution of the phosphoproteins based on GO analysis, including biological process (Left) and cellular component (Right). Distribution of the phosphoproteins.

Dynamics and expression level of mating‐dependent promoters

Protein annotation and compartment fold change distribution for different proteomics datasets Protein annotation and compartment fold change distribution.

Shared components define the ‘ancient’ phagosome.

Francis Crick's central dogma of biology revolves around the transcription of mRNA from DNA, the translation of proteins from mRNA, and the degradation.

Transcriptomic and epigenetic changes associated with Factor 1 in the scMT data Transcriptomic and epigenetic changes associated with Factor 1 in the scMT.

48 clinically relevant GPCR receptors mapped using MYTH

Comparison of proteomics and RNA‐Seq data.

Dynamics of induction of mating promoters after pheromone stimulation

Effects of ERK–GFP expression levels and cell density on ERK phosphorylation and oscillations. Effects of ERK–GFP expression levels and cell density on.

Impact of growth phase on the Escherichia coli meltome and proteome

DominoEffect R package

Simulation showing that the cell length variability of the entire population can mask abnormal cell length variability at a specific cell cycle period.

RSLs enable internal replicate and lineage dropout analyses

Reproducibility of DeathPro drug screens

Protein interactions at the nuclear pore.

Antibody specificity ascertained by 2D-PAGE Western immunoblotting (IEF) of total cellular protein extracts from the RT4 human bladder cancer cell line.

Melting behavior of protein complexes

Experimental validation of predicted endocytosis functions in human.

Global and focused views of human interaction map.

Rare and abundant codons.

Functional metabolic rearrangements in chloramphenicol‐resistant populations Functional metabolic rearrangements in chloramphenicol‐resistant populations.

Changes in protein expression during distinct stages of NK cell differentiation. Changes in protein expression during distinct stages of NK cell differentiation.

Integration of proteomic data into the model

Glucose pulses incorporate directly into the de novo biomass in non‐dividing cells Glucose pulses incorporate directly into the de novo biomass in non‐dividing.

The transcriptional behavior of GREB1 changes with estrogen dose and exhibits considerable cell‐to‐cell variation (see also Fig EV2 and Movie EV2)‏ The.

(A) Observed significant protein fold‐changes during the fed–fasting transition in C57BL/6J (B6) and 129Sv (S9) mice fed with a normal diet (T0). (A) Observed.

Inhibitory effect of perhexiline on the proliferation of the HepG2 cell line A, BPerhexiline was used to mimic the effect of the l‐carnitine analog on.

Network recovery for isoenzymes and protein complexes

Presentation transcript:

Melting behavior of proteins identified in the Escherichia coli meltome and their properties Melting behavior of proteins identified in the Escherichia coli meltome and their properties AReproducibility of identified proteins in each replicate of E. coli meltome analysis.BOverlap of identified proteins with previously published proteomics datasets obtained from E. coli.CDistribution of differences between protein abundance after being extracted with NP‐40 or with SDS.D, ECorrelation of melting point with (D) protein abundance (r = 0.06, P = 0.015, as measured by the top3 intensity corresponding to the lowest temperature) and (E) molecular weight (r = −0.08, P = 0.0009).FCorrelation of melting point in living cells with melting point in lysate—both from TPP (r = 0.82, P < 0.0001).GMelting curves for E. coli outer membrane proteins. The average melting curve for each class of outer membrane proteins is shown.HDistribution of melting temperatures (Tm) of the E. coli proteome according to their cellular compartment.IFraction of proteins with Tm > 87°C (the highest temperature tested) in each cellular compartment. André Mateus et al. Mol Syst Biol 2018;14:e8242 © as stated in the article, figure or figure legend