Spatial modeling of prostate cancer metabolic gene expression reveals extensive heterogeneity and selective vulnerabilities

[1]  Toma Tebaldi,et al.  High-Spatial-Resolution Multi-Omics Atlas Sequencing of Mouse Embryos via Deterministic Barcoding in Tissue , 2019, bioRxiv.

[2]  Richard Bonneau,et al.  High-definition spatial transcriptomics for in situ tissue profiling , 2019, Nature Methods.

[3]  G. DeNicola,et al.  The Non-Essential Amino Acid Cysteine Becomes Essential for Tumor Proliferation and Survival , 2019, Cancers.

[4]  N. Hockstein,et al.  Fatty acid transporter 2 reprograms neutrophils in cancer , 2019, Nature.

[5]  A. Indra,et al.  Stearoyl CoA Desaturase Is Essential for Regulation of Endoplasmic Reticulum Homeostasis and Tumor Growth in Glioblastoma Cancer Stem Cells , 2019, Stem cell reports.

[6]  Mathias Uhlen,et al.  Discovery of therapeutic agents for prostate cancer using genome-scale metabolic modeling and drug repositioning , 2019, EBioMedicine.

[7]  I. Yanai,et al.  Integrating single-cell RNA-Seq with spatial transcriptomics in pancreatic ductal adenocarcinoma using multimodal intersection analysis , 2019 .

[8]  Evan Z. Macosko,et al.  Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution , 2019, Science.

[9]  Anne Richelle,et al.  Creation and analysis of biochemical constraint-based models using the COBRA Toolbox v.3.0 , 2019, Nature Protocols.

[10]  B. Faubert,et al.  Evidence for an alternative fatty acid desaturation pathway increasing cancer plasticity , 2019, Nature.

[11]  D. Nomura,et al.  Suppressing fatty acid uptake has therapeutic effects in preclinical models of prostate cancer , 2019, Science Translational Medicine.

[12]  P. Hammerman,et al.  Suppression of Myeloid Cell Arginase Activity leads to Therapeutic Response in a NSCLC Mouse Model by Activating Anti-Tumor Immunity , 2019, Journal of Immunotherapy for Cancer.

[13]  L. Horvath,et al.  Extracellular Fatty Acids Are the Major Contributor to Lipid Synthesis in Prostate Cancer , 2019, Molecular Cancer Research.

[14]  Catherine E. Braine,et al.  Spatiotemporal dynamics of molecular pathology in amyotrophic lateral sclerosis , 2018, Science.

[15]  Xin Li,et al.  Spatially resolved metabolomics to discover tumor-associated metabolic alterations , 2018, Proceedings of the National Academy of Sciences.

[16]  J. Maaskola,et al.  Spatially Resolved Transcriptomics Enables Dissection of Genetic Heterogeneity in Stage III Cutaneous Malignant Melanoma. , 2018, Cancer research.

[17]  Yongjie Ma,et al.  Abstract 5491: Blocking acyl-CoAs synthesis inhibits prostate cancer progression , 2018, Molecular and Cellular Biology / Genetics.

[18]  Patrik L. Ståhl,et al.  Spatial maps of prostate cancer transcriptomes reveal an unexplored landscape of heterogeneity , 2018, Nature Communications.

[19]  Guo-Dong Lu,et al.  Fatty acid activation in carcinogenesis and cancer development: Essential roles of long-chain acyl-CoA synthetases. , 2018, Oncology letters.

[20]  V. Jendrossek,et al.  The Mitochondrial Citrate Carrier (SLC25A1) Sustains Redox Homeostasis and Mitochondrial Metabolism Supporting Radioresistance of Cancer Cells With Tolerance to Cycling Severe Hypoxia , 2018, Front. Oncol..

[21]  Mingyao Li,et al.  Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease , 2018, Science.

[22]  M. Snuderl,et al.  Aspartate is a limiting metabolite for cancer cell proliferation under hypoxia and in tumors , 2018, Nature Cell Biology.

[23]  T. Bathen,et al.  Cholesterol synthesis pathway genes in prostate cancer are transcriptionally downregulated when tissue confounding is minimized , 2018, BMC Cancer.

[24]  Amrita Cheema,et al.  The mitochondrial citrate carrier, SLC25A1, drives stemness and therapy resistance in non-small cell lung cancer , 2018, Cell Death & Differentiation.

[25]  Yongjie Ma,et al.  Biosynthesis of acyl‐CoAs sustains prostate cancer progression , 2018 .

[26]  T. Oury,et al.  SOD3 improves the tumor response to chemotherapy by stabilizing endothelial HIF-2α , 2018, Nature Communications.

[27]  J. Bakkers,et al.  Spatially resolved RNA-sequencing of the embryonic heart identifies a role for Wnt/β-catenin signaling in autonomic control of heart rate , 2018, eLife.

[28]  B. Liagre,et al.  Research of novel anticancer agents targeting arginase inhibition. , 2018, Drug discovery today.

[29]  P. Schirmacher,et al.  Spatial Tissue Proteomics Quantifies Inter- and Intratumor Heterogeneity in Hepatocellular Carcinoma (HCC)* , 2018, Molecular & Cellular Proteomics.

[30]  Avlant Nilsson,et al.  Recon3D: A Resource Enabling A Three-Dimensional View of Gene Variation in Human Metabolism , 2018, Nature Biotechnology.

[31]  N. Mahowald,et al.  Global and regional importance of the direct dust-climate feedback , 2018, Nature Communications.

[32]  A. Carracedo,et al.  Oil for the cancer engine: The cross-talk between oncogenic signaling and polyamine metabolism , 2018, Science Advances.

[33]  S. Teichmann,et al.  SpatialDE: identification of spatially variable genes , 2018, Nature Methods.

[34]  J. Schuetz,et al.  A novel role for OATP2A1/SLCO2A1 in a murine model of colon cancer , 2017, Scientific Reports.

[35]  Patrik L. Ståhl,et al.  Spatial detection of fetal marker genes expressed at low level in adult human heart tissue , 2017, Scientific Reports.

[36]  R. Mitra,et al.  Positive regulation of prostate cancer cell growth by lipid droplet forming and processing enzymes DGAT1 and ABHD5 , 2017, BMC Cancer.

[37]  Yoshinobu Nakamura,et al.  Impact of FDA-Approved Drugs on the Prostaglandin Transporter OATP2A1/SLCO2A1. , 2017, Journal of pharmaceutical sciences.

[38]  G. C. Chan,et al.  Drug-induced amino acid deprivation as strategy for cancer therapy , 2017, Journal of Hematology & Oncology.

[39]  Eric Eidelman,et al.  The Metabolic Phenotype of Prostate Cancer , 2017, Front. Oncol..

[40]  Guangping Chen,et al.  SLC14A1: a novel target for human urothelial cancer , 2017, Clinical and Translational Oncology.

[41]  V. Miller,et al.  Identification of novel fumarate hydratase gene alterations in prostate cancer. , 2017 .

[42]  M. Shilaih,et al.  Pulse Rate Measurement During Sleep Using Wearable Sensors, and its Correlation with the Menstrual Cycle Phases, A Prospective Observational Study , 2017, Scientific Reports.

[43]  Anne Richelle,et al.  A Systematic Evaluation of Methods for Tailoring Genome-Scale Metabolic Models. , 2017, Cell systems.

[44]  J. Xavier,et al.  Metabolic origins of spatial organization in the tumor microenvironment , 2017, Proceedings of the National Academy of Sciences.

[45]  T. Wolfsberg,et al.  Mapping Complex Traits in a Diversity Outbred F1 Mouse Population Identifies Germline Modifiers of Metastasis in Human Prostate Cancer. , 2017, Cell systems.

[46]  I. Amit,et al.  Single-cell spatial reconstruction reveals global division of labor in the mammalian liver , 2016, Nature.

[47]  A. Walch,et al.  ACSL4 dictates ferroptosis sensitivity by shaping cellular lipid composition. , 2017, Nature chemical biology.

[48]  M. Merino,et al.  Genetic polymorphisms of SCN9A are associated with oxaliplatin-induced neuropathy , 2017, BMC Cancer.

[49]  Wei Zhou,et al.  Arginine Methylation of MDH1 by CARM1 Inhibits Glutamine Metabolism and Suppresses Pancreatic Cancer. , 2016, Molecular cell.

[50]  Yinyin Yuan.  Spatial Heterogeneity in the Tumor Microenvironment. , 2016, Cold Spring Harbor perspectives in medicine.

[51]  A. Schulze,et al.  Systematic Analysis Reveals that Cancer Mutations Converge on Deregulated Metabolism of Arachidonate and Xenobiotics. , 2016, Cell reports.

[52]  Patrik L. Ståhl,et al.  Visualization and analysis of gene expression in tissue sections by spatial transcriptomics , 2016, Science.

[53]  F. Chilton,et al.  Impact of Genetic and Epigenetic Variations Within the FADS Cluster on the Composition and Metabolism of Polyunsaturated Fatty Acids in Prostate Cancer , 2016, The Prostate.

[54]  M. Lai,et al.  Systematic Analysis of Gene Expression Alterations and Clinical Outcomes for Long-Chain Acyl-Coenzyme A Synthetase Family in Cancer , 2016, PloS one.

[55]  T. Bathen,et al.  A Balanced Tissue Composition Reveals New Metabolic and Gene Expression Markers in Prostate Cancer , 2016, PloS one.

[56]  A. Harris,et al.  Inhibition of fatty acid desaturation is detrimental to cancer cell survival in metabolically compromised environments , 2016, Cancer & Metabolism.

[57]  S. Ahuja,et al.  L-asparaginase in the treatment of patients with acute lymphoblastic leukemia , 2016, Journal of pharmacology & pharmacotherapeutics.

[58]  C. Thompson,et al.  The Emerging Hallmarks of Cancer Metabolism. , 2016, Cell metabolism.

[59]  K. Eales,et al.  Hypoxia and metabolic adaptation of cancer cells , 2016, Oncogenesis.

[60]  M. Rubinstein,et al.  Leukotriene C4 is the major trigger of stress-induced oxidative DNA damage , 2015, Nature Communications.

[61]  D. Neal,et al.  A glycolytic phenotype is associated with prostate cancer progression and aggressiveness: a role for monocarboxylate transporters as metabolic targets for therapy , 2015, The Journal of pathology.

[62]  J. Koo,et al.  Differential Expression of Lipid Metabolism-Related Proteins in Different Breast Cancer Subtypes , 2015, PloS one.

[63]  C. Mathers,et al.  Cancer incidence and mortality worldwide: Sources, methods and major patterns in GLOBOCAN 2012 , 2015, International journal of cancer.

[64]  A. Harris,et al.  Fatty acid uptake and lipid storage induced by HIF-1α contribute to cell growth and survival after hypoxia-reoxygenation. , 2014, Cell reports.

[65]  Ji-Xin Cheng,et al.  Cholesteryl ester accumulation induced by PTEN loss and PI3K/AKT activation underlies human prostate cancer aggressiveness. , 2014, Cell metabolism.

[66]  O. Goodman,et al.  Enhanced detection of metastatic prostate cancer cells in human plasma with lipid bodies staining , 2014, BMC Cancer.

[67]  B. Jansen,et al.  High-resolution 3D micro-CT imaging of breast microcalcifications: a preliminary analysis , 2014, BMC Cancer.

[68]  M. Loda,et al.  The fat side of prostate cancer. , 2013, Biochimica et biophysica acta.

[69]  E. White,et al.  Hypoxic and Ras-transformed cells support growth by scavenging unsaturated fatty acids from lysophospholipids , 2013, Proceedings of the National Academy of Sciences.

[70]  K. Taskén,et al.  Proinflammatory and Immunoregulatory Roles of Eicosanoids in T Cells , 2013, Front. Immunol..

[71]  Ronan M. T. Fleming,et al.  A community-driven global reconstruction of human metabolism , 2013, Nature Biotechnology.

[72]  J. Byun,et al.  Emerging Roles of Human Prostatic Acid Phosphatase , 2013, Biomolecules & therapeutics.

[73]  Nathan D. Price,et al.  Reconstruction of genome-scale metabolic models for 126 human tissues using mCADRE , 2012, BMC Systems Biology.

[74]  Ugo Pastorino,et al.  Association of lung adenocarcinoma clinical stage with gene expression pattern in noninvolved lung tissue , 2012, International journal of cancer.

[75]  D. Sabatini,et al.  Cancer cell metabolism: one hallmark, many faces. , 2012, Cancer discovery.

[76]  Chen Chen,et al.  Revealing metabolite biomarkers for acupuncture treatment by linear programming based feature selection , 2012, BMC Systems Biology.

[77]  B. Wang,et al.  SCD1 Inhibition Causes Cancer Cell Death by Depleting Mono-Unsaturated Fatty Acids , 2012, PloS one.

[78]  H. Jin,et al.  Characterization of hydrogen sulfide and its synthases, cystathionine β-synthase and cystathionine γ-lyase, in human prostatic tissue and cells. , 2012, Urology.

[79]  Yi Pan,et al.  A new essential protein discovery method based on the integration of protein-protein interaction and gene expression data , 2012, BMC Systems Biology.

[80]  D. S. St. Clair,et al.  Manganese Superoxide Dismutase: Guardian of the Powerhouse , 2011, International journal of molecular sciences.

[81]  Gabriela Kalna,et al.  Haem oxygenase is synthetically lethal with the tumour suppressor fumarate hydratase , 2011, Nature.

[82]  E. Ruppin,et al.  Predicting selective drug targets in cancer through metabolic networks , 2011, Molecular Systems Biology.

[83]  Hyunsuk Shim,et al.  Metabolic positron emission tomography imaging in cancer detection and therapy response. , 2011, Seminars in oncology.

[84]  James B. Mitchell,et al.  Imaging cycling tumor hypoxia. , 2010, Cancer research.

[85]  D. Mashek,et al.  Hepatic long-chain acyl-CoA synthetase 5 mediates fatty acid channeling between anabolic and catabolic pathways[S] , 2010, Journal of Lipid Research.

[86]  Yiyan Liu,et al.  Dominant uptake of fatty acid over glucose by prostate cells: a potential new diagnostic and therapeutic approach. , 2010, Anticancer research.

[87]  M. Munder.  Arginase: an emerging key player in the mammalian immune system , 2009, British journal of pharmacology.

[88]  Shalini Jain,et al.  Prostaglandin E2 regulates tumor angiogenesis in prostate cancer. , 2008, Cancer research.

[89]  L. Oberley,et al.  Extracellular redox state regulates features associated with prostate cancer cell invasion. , 2008, Cancer research.

[90]  T. Golub,et al.  15-Hydroxyprostaglandin dehydrogenase is a target of hepatocyte nuclear factor 3beta and a tumor suppressor in lung cancer. , 2008, Cancer research.

[91]  Monica L. Mo,et al.  Global reconstruction of the human metabolic network based on genomic and bibliomic data , 2007, Proceedings of the National Academy of Sciences.

[92]  A. Buckley,et al.  Sulfasalazine‐induced cystine starvation: Potential use for prostate cancer therapy , 2007, The Prostate.

[93]  John T. Wei,et al.  Integrative molecular concept modeling of prostate cancer progression , 2007, Nature Genetics.

[94]  T. P. Pretlow,et al.  15-Hydroxyprostaglandin dehydrogenase is an in vivo suppressor of colon tumorigenesis , 2006, Proceedings of the National Academy of Sciences.

[95]  E. Gottlieb,et al.  Succinate dehydrogenase and fumarate hydratase: linking mitochondrial dysfunction and cancer , 2006, Oncogene.

[96]  B. Karlan,et al.  15-hydroxyprostaglandin dehydrogenase is a tumor suppressor of human breast cancer. , 2006, Cancer research.

[97]  J. Brayer,et al.  Arginase I Production in the Tumor Microenvironment by Mature Myeloid Cells Inhibits T-Cell Receptor Expression and Antigen-Specific T-Cell Responses , 2004, Cancer Research.

[98]  A. Levine,et al.  The role of cyclooxygenase-2 in prostate cancer. , 2001, Urology.

[99]  T. M. Lewin,et al.  Expression and Characterization of Recombinant Rat Acyl-CoA Synthetases 1, 4, and 5 , 2001, The Journal of Biological Chemistry.

[100]  H. Tai,et al.  Induction of NAD(+)-linked 15-hydroxyprostaglandin dehydrogenase expression by androgens in human prostate cancer cells. , 2000, Biochemical and biophysical research communications.

[101]  C. Myers,et al.  Inhibition of arachidonate 5-lipoxygenase triggers massive apoptosis in human prostate cancer cells. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[102]  C. Lynch,et al.  Role of hepatic carbonic anhydrase in de novo lipogenesis. , 1995, The Biochemical journal.

[103]  J. Obrecht.  [Cancer therapy]. , 1977, Deutsche medizinische Wochenschrift.