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a) Volcano plot showed the distribution of the most significant altered proteins comparing PD-derived mesDA neurons vs HS. Proteins showing statistically significant differences in expression are located in the top right (upregulated) and top left (downregulated) quadrants. The black line represents the p-value threshold set to p < 0.01. b) Heat map representation of the most 50 differentially expressed proteins highlighting the clusters of the two groups of analysis when comparing PD-derived mesDA to HS . c) Graphical representation of DEPs detected in PD-derived mesDA, up– (in red) and down– (in blue) regulated proteins that were also deregulated in SOX6+/AGTR1+ and in DA nuclei. Data from SOX6+/AGTR1+ and DA nuclei were available from the <t>human</t> <t>single-cell</t> <t>RNA</t> <t>sequencing</t> available dataset ( https://singlecell.broadinstitute.org/single_cell/app/genes ). d) Graphical representation of the most 20 enriched pathways from IPA analysis. e-g ) Heat map representation of the most dysregulated pathways within the PD-derived mesDA when compared to the HS.
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a) Volcano plot showed the distribution of the most significant altered proteins comparing PD-derived mesDA neurons vs HS. Proteins showing statistically significant differences in expression are located in the top right (upregulated) and top left (downregulated) quadrants. The black line represents the p-value threshold set to p < 0.01. b) Heat map representation of the most 50 differentially expressed proteins highlighting the clusters of the two groups of analysis when comparing PD-derived mesDA to HS . c) Graphical representation of DEPs detected in PD-derived mesDA, up– (in red) and down– (in blue) regulated proteins that were also deregulated in SOX6+/AGTR1+ and in DA nuclei. Data from SOX6+/AGTR1+ and DA nuclei were available from the human single-cell RNA sequencing available dataset ( https://singlecell.broadinstitute.org/single_cell/app/genes ). d) Graphical representation of the most 20 enriched pathways from IPA analysis. e-g ) Heat map representation of the most dysregulated pathways within the PD-derived mesDA when compared to the HS.

Journal: bioRxiv

Article Title: Rare variants alter mitochondrial lipid homeostasis and neuronal excitability in PD patient-derived dopaminergic neurons

doi: 10.64898/2026.04.10.717646

Figure Lengend Snippet: a) Volcano plot showed the distribution of the most significant altered proteins comparing PD-derived mesDA neurons vs HS. Proteins showing statistically significant differences in expression are located in the top right (upregulated) and top left (downregulated) quadrants. The black line represents the p-value threshold set to p < 0.01. b) Heat map representation of the most 50 differentially expressed proteins highlighting the clusters of the two groups of analysis when comparing PD-derived mesDA to HS . c) Graphical representation of DEPs detected in PD-derived mesDA, up– (in red) and down– (in blue) regulated proteins that were also deregulated in SOX6+/AGTR1+ and in DA nuclei. Data from SOX6+/AGTR1+ and DA nuclei were available from the human single-cell RNA sequencing available dataset ( https://singlecell.broadinstitute.org/single_cell/app/genes ). d) Graphical representation of the most 20 enriched pathways from IPA analysis. e-g ) Heat map representation of the most dysregulated pathways within the PD-derived mesDA when compared to the HS.

Article Snippet: However, considering the specific loss of the dopaminergic neurons of the Substantia Nigra pars compacta in PD patients, we tested the expression of the genes encoding for the 62 down-regulated proteins in the SNpc cells, by analyzing the human single-cell RNA sequencing available dataset [ ] ( https://singlecell.broadinstitute.org/single_cell/app/genes ).

Techniques: Derivative Assay, Expressing, Single Cell, RNA Sequencing

Journal: Cell Genomics

Article Title: ChromBERT: A foundation model for learning interpretable representations for context-specific transcriptional regulatory networks

doi: 10.1016/j.xgen.2025.101130

Figure Lengend Snippet:

Article Snippet: PBMC 10× single-cell multi-omics dataset , 10× Genomics Datasets , https://www.10xgenomics.com/datasets/pbmc-from-a-healthy-donor-granulocytes-removed-through-cell-sorting-10-k-1-standard-2-0-0.

Techniques: Gene Expression, Single Cell, Biomarker Discovery, Software