Journal: Cell & Bioscience

Article Title: Transcriptionally imprinted glycomic signatures of acute myeloid leukemia

doi: 10.1186/s13578-023-00981-0

Figure Lengend Snippet: Overview of the conducted study. AML glycosylation was explored on the level of glycomics (GPST datasets) and transcriptomics (GSE and DepMap datasets). Based on the depicted datasets originating from cell lines and primary cells we sought to explore cellular glycosylation, involved GSTs, and responsible TFs

Article Snippet: AML cell line transcriptomics data was obtained from the depmap portal (Expression 22Q2 Public; Broad Institute, Cambridge, MA, USA) [ ].

Techniques: Glycoproteomics

Journal: Cell & Bioscience

Article Title: Transcriptionally imprinted glycomic signatures of acute myeloid leukemia

doi: 10.1186/s13578-023-00981-0

Figure Lengend Snippet: Glycomic overview of various AML cell lines. a PCA of glycosylation features derived from glycomics data of 19 AML cell lines. Individual cell lines are annotated and colored by their FAB classifications as assigned earlier . b The associated score plot depicts considered glycan features, which are linked to their respective glycan class ( N -, O -, and GSL) by color (purple, orange, and green) and symbol (triangle, square, and circle). In addition, arrows indicate features that are linked to a specific type of fucosylation. c Radar plots are showing the differences in glycosylation features between AML classes M5 and M6. Again, these features are subdivided into their respective classes based on color and symbols. Data on all AML cell lines were z-transformed prior to visualizing differences between FAB classes in these radar plots. d Spearman correlation of selected glycosylation features between the different glycan classes. Thick connective lines indicate a good correlation whereas thin connective lines show less correlation. Correlation values are depicted

Article Snippet: AML cell line transcriptomics data was obtained from the depmap portal (Expression 22Q2 Public; Broad Institute, Cambridge, MA, USA) [ ].

Techniques: Glycoproteomics, Derivative Assay, Transformation Assay

Journal: Cell & Bioscience

Article Title: Transcriptionally imprinted glycomic signatures of acute myeloid leukemia

doi: 10.1186/s13578-023-00981-0

Figure Lengend Snippet: Correlation of glycosylation features of N -, O -, and GSL-glycans with the expression of selected TFs in AML cell lines. Correlation coefficients were obtained by Spearman analysis and are indicated by color as indicated in the legend. Of note, due to rather weak correlations of ST6GALs and glycomics data, we did not include these GSTs in our overview. Significant values are marked with * (p ≤ 0.05), ** (p ≤ 0.01,) and *** (p ≤ 0.001). Correlation coefficients and p-values are listed in the Additional file : Table S9

Article Snippet: AML cell line transcriptomics data was obtained from the depmap portal (Expression 22Q2 Public; Broad Institute, Cambridge, MA, USA) [ ].

Techniques: Glycoproteomics, Expressing

Journal: Cell & Bioscience

Article Title: Transcriptionally imprinted glycomic signatures of acute myeloid leukemia

doi: 10.1186/s13578-023-00981-0

Figure Lengend Snippet: Differences in glycan signatures of M5 and M6 AML cell lines as well as corresponding GST and TF expression. M5 and M6 classes are presented as grey and brown rectangles, respectively. GSTs displayed in the figure present a positive correlation with the corresponding glycosylation feature. The underlined TFs correlate with the glycosylation features. The underlined TFs colored in red are positively correlated with GSTs

Article Snippet: AML cell line transcriptomics data was obtained from the depmap portal (Expression 22Q2 Public; Broad Institute, Cambridge, MA, USA) [ ].

Techniques: Glycoproteomics, Expressing

Journal: Cell & Bioscience

Article Title: Transcriptionally imprinted glycomic signatures of acute myeloid leukemia

doi: 10.1186/s13578-023-00981-0

Figure Lengend Snippet: GST and TF expression in primary AML cells. a Determination of the matrix correlation coefficient RV2 (0.49) between expression patterns observed in cell lines and primary samples. b Spearman correlation of selected GSTs with TFs in AML cell lines (left) and primary AML cells (right). c Comparison of the expression of selected GSTs and TFs in primary AML cells grouped by FAB classification. Significances were assessed by one-way ANOVA followed by a Tukey post-hoc test. Significant values are marked with * (p ≤ 0.05), ** (p ≤ 0.01), *** (p ≤ 0.001), and **** (p ≤ 0.0001)

Article Snippet: AML cell line transcriptomics data was obtained from the depmap portal (Expression 22Q2 Public; Broad Institute, Cambridge, MA, USA) [ ].

Techniques: Expressing, Comparison

Journal: Aging Cell

Article Title: The Immune Cell Atlas of “Longevity Molecular Tag”: Identification of Principal Immune Cell Subsets and Their Underlying Molecular Regulatory Mechanisms

doi: 10.1111/acel.70431

Figure Lengend Snippet: Single‐cell transcriptome landscape in aging cohort. (A) UMAP visualization of cell‐type‐specific annotation among the aging cohort, showing 9 cell groups in different colors. (B) UMAP visualization of immune cell subpopulation annotation across different age groups, displaying 21 subpopulations in different colors. (C) The proportion of 21 different cell types across age groups.

Article Snippet: Single‐cell transcriptomic data from 56 healthy individuals aged from birth to over 90 years were acquired from the Shanghai Pudong Cohort ( NCT05206643 ) (Synapse: syn61609846) (Wang, Li, et al. ).

Techniques: Single Cell

Journal: Aging Cell

Article Title: The Immune Cell Atlas of “Longevity Molecular Tag”: Identification of Principal Immune Cell Subsets and Their Underlying Molecular Regulatory Mechanisms

doi: 10.1111/acel.70431

Figure Lengend Snippet: Centenarian phenotype‐associated immune cell type analysis at single‐cell resolution. (A) UMAP visualization of cell‐type‐specific annotation among immune cells, showing 9 cell groups in different colors. (B) UMAP visualization of subcellular annotation among immune cell subpopulations, showing 21 subpopulations in different colors. (C) UMAP visualization of Scissor + and Scissor − cells. (D, E) Proportional fractions of identified cell types across Scissor +/− conditions among extracted immune cells.

Article Snippet: Single‐cell transcriptomic data from 56 healthy individuals aged from birth to over 90 years were acquired from the Shanghai Pudong Cohort ( NCT05206643 ) (Synapse: syn61609846) (Wang, Li, et al. ).

Techniques: Single Cell