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Journal Articles
The Journal of Cell Biology (2020) 219 (2): e201807127.
Published: 22 January 2020
Journal Articles
The Journal of Cell Biology (2020) 219 (3): e201904090.
Published: 22 January 2020
Includes: Supplementary data
Images
RNA-seq identifies the transcriptomic signature of acutely injured neurons....
Published: 22 January 2020
Figure 1. RNA-seq identifies the transcriptomic signature of acutely injured neurons. (A) Experimental design to generate a common transcriptomic signature of acutely injured primary mouse neurons. DIV7 neurons prepared from E17 mice were exposed to either OGD or KA. Differentially expressed gen... More
Images
Loss of  mcp-1  decreases stress resistance in  C. elegans.  (A)  Survival ...
Published: 22 January 2020
Figure S1. Loss of mcp-1 decreases stress resistance in C. elegans. (A) Survival curves of L4 wild-type C. elegans animals exposed to increasing periods of hypoxia (mean ± SEM; n > 150 worms per time point). (B) Survival of L4 worms of indicated genotypes following 48-h exposure to ... More
Images
mcp-1  is expressed in  C. elegans  neurons and is transcriptionally down-r...
Published: 22 January 2020
Figure 2. mcp-1 is expressed in C. elegans neurons and is transcriptionally down-regulated during stress. (A) Fluorescent micrographs of animals expressing a transcriptional mcp-1 reporter ( Pmcp-1::mCherry ). Left: Under normoxic conditions, expression is apparent in neuronal cell bodies ... More
Images
mcp-1  functions in neurons to increase stress resistance. (A)  Survival cu...
Published: 22 January 2020
Figure 3. mcp-1 functions in neurons to increase stress resistance. (A) Survival curves of wild-type and mcp-1(tm2679) mutant animals cultured on standard NGM plates at 25°C (ns, nonsignificant; log-rank test; n > 100 worms per genotype). (B) Survival of animals of indicated genotypes... More
Images
GDPGP1  is down-regulated by stress, and its knockdown leads to neurodegene...
Published: 22 January 2020
Figure 4. GDPGP1 is down-regulated by stress, and its knockdown leads to neurodegeneration in mouse neurons. (A and B) Quantitative RT-PCR analysis of GDPGP1 transcript levels in DIV7 primary mouse neurons exposed to OGD (A) and paraquat (B). All values were normalized to control treated neu... More
Images
GDPGP1  knockdown in mouse neurons causes up-regulation of stress-related p...
Published: 22 January 2020
Figure S2. GDPGP1 knockdown in mouse neurons causes up-regulation of stress-related proteins. (A) Immunocytochemistry of cultured primary neurons. GDPGP1 (red) is labeled along with the neuronal marker βIII spectrin (green). Scale bar, 50 µm. (B) Immunoblot of cell lysates prepared from DIV4... More
Images
Loss of  mcp-1/GDPGP1  decreases neuronal glycogen levels. (A)  Overview of...
Published: 22 January 2020
Figure 5. Loss of mcp-1/GDPGP1 decreases neuronal glycogen levels. (A) Overview of reactions in glucose metabolism involving glucose-1-P and related metabolites. (B) Quantification of glucose-1-P levels in L4 nematodes of indicated genotypes (*, P < 0.05; mean ± SEM; n = 4). (C) Quant... More
Images
Loss of  GDPGP1/mcp-1  does not alter glucose-6-P and pyruvate levels. (A) ...
Published: 22 January 2020
Figure S3. Loss of GDPGP1/mcp-1 does not alter glucose-6-P and pyruvate levels. (A) Quantification of glucose-6-P levels in cell lysates prepared from DIV4 primary mouse neurons transfected with scrambled control (shScramble) and GDPGP1-targeted (shGDPGP1) shRNA constructs (ns, nonsignificant;... More
Images
mcp-1  is neuroprotective in a  C. elegans  tauopathy model. (A)  Represent...
Published: 22 January 2020
Figure 6. mcp-1 is neuroprotective in a C. elegans tauopathy model. (A) Representative fluorescent micrograph of control and Paex-3::htauV337M nematodes at L4 stage. GABA nervous system is visualized by Punc-25::GFP. GABA neuron cell bodies can be identified in the ventral nerve cord (VNC). ... More
Images
Proposed model of  GDPGP1/mcp-1 ’s function in neuronal stress response.  U...
Published: 22 January 2020
Figure 7. Proposed model of GDPGP1/mcp-1 ’s function in neuronal stress response. Upon injury or damage to neuronal cells, a response program is initiated that involves down-regulation of GDPGP1/mcp-1 transcript and protein levels. GDPGP1/mcp-1 down-regulation results in lower glucose-1-P l... More
Images
Accurate assignment of subcellular localization from images of NMuMG and MC...
Published: 22 January 2020
Figure 1. Accurate assignment of subcellular localization from images of NMuMG and MCF10A cells expressing EGFP-tagged landmark proteins by RF classification . (A) Representative microscope images of cells expressing the EGFP-tagged landmark proteins ( Table 1 ). Scale bars, 25 µm. (B) Confu... More
Images
Image processing pipeline.  (I)  Image segmentation of cell images (scale b...
Published: 22 January 2020
Figure S1. Image processing pipeline. (I) Image segmentation of cell images (scale bar, 25 µm) includes identifying the nucleus, cytoplasm, ROI, and spots. Acapella software by Perkin Elmer was used for all steps. (II and III) Prior to feature extraction, all images undergo a quality control ... More
Images
Images of cell landmarks are well separated in 160-dimensional feature spac...
Published: 22 January 2020
Figure 2. Images of cell landmarks are well separated in 160-dimensional feature space. (A) Two-dimensional visualization of 160-dimensional image data for both murine and human cells from individual landmarks using the t-SNE algorithm. Each landmark is represented by the 200 cell images (dots) ... More
Images
Euclidean distances between centroids of the landmarks in NMuMG cells.  Top...
Published: 22 January 2020
Figure S2. Euclidean distances between centroids of the landmarks in NMuMG cells. Top panel: Heat map of distances colored as indicated to the right. Bottom panel: Numerical data. Distances are unitless because they represent Z-scored multidimensional data but can be thought of as the number of ... More
Images
Classification results for intensity quartile analysis  .  Murine image dat...
Published: 22 January 2020
Figure 3. Classification results for intensity quartile analysis . Murine image data for landmarks, indicated to the left and by the color as in Fig. 2 A , were divided into quartiles based on the average pixel intensity within the cell region. RF classification was performed using randomly se... More
Images
Validation of the NMuMG RF classifier using images of cells expressing nove...
Published: 22 January 2020
Figure 4. Validation of the NMuMG RF classifier using images of cells expressing novel landmarks not used for training and images of MCF10A cells expressing selected landmarks. (A) EGFP or mLumin fusions to targeting sequences from proteins with well-characterized localizations ( Table 1 ) or or... More
Images
Targeting to the mitochondria is determined by both the position and number...
Published: 22 January 2020
Figure 5. Targeting to the mitochondria is determined by both the position and number of positive charges in the CTS. (A) Representation using pLogo of over- and underrepresented amino acids at each position of the CTS derived from all the sequences assigned to one or both of the classes of mito... More
Images
Amino acid enrichment within CTS. (A)  Statistical enrichment for the numbe...
Published: 22 January 2020
Figure S3. Amino acid enrichment within CTS. (A) Statistical enrichment for the number of positive charges in the CTS of EGFP-TA mutants assigned to different localizations. A hypergeometric distribution was used to calculate statistical enrichment. Asterisks highlight statistical significance a... More