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Dobin, C. A. Davis, F. Schlesinger, et al.  \"Bioinformatics.\"  29, \"STAR: Ultrafast universal RNA-seq aligner.\" 15 (2013)","DOI":"10.1093\/bioinformatics\/bts635"},{"key":"2","doi-asserted-by":"crossref","unstructured":"J. Alvar, I. D. Velez, C. Bern, et al.  \"PLoS One.\"  7, \"Leishmaniasis worldwide and global estimates of its incidence.\" e35671 (2012)","DOI":"10.1371\/journal.pone.0035671"},{"key":"6","doi-asserted-by":"crossref","unstructured":"S. Burza, S. L. Croft, M. Boelaert,  \"Lancet.\"  392, \"Leishmaniasis.\" 951 (2018)","DOI":"10.1016\/S0140-6736(18)31204-2"},{"key":"1","doi-asserted-by":"crossref","unstructured":"K. Akarid, D. Arnoult, J. Micic-Polianski, et al.  \"Journal of Leukocyte Biology.\"  76, \"Leishmania majormediated prevention of programmed cell death induction in infected macrophages is associated with the repression of mitochondrial release of cytochrome c.\" 95 (2004)","DOI":"10.1189\/jlb.1001877"},{"key":"3","doi-asserted-by":"crossref","unstructured":"A. P. Araujo  and S. Giorgio  \"Archives of Dermatolological Research.\"  307, \"Immunohistochemical evidence of stress and inflammatory markers in mouse models of cutaneous leishmaniosis.\" 671 (2015)","DOI":"10.1007\/s00403-015-1564-0"},{"key":"4","doi-asserted-by":"crossref","unstructured":"M. Bettadapura, H. Roys, A. Bowlin, et al.  \"Pathogens.\"  10, \"HIF-\u03b1 activation impacts macrophage function during murine Leishmania major infection.\" 1584 (2021)","DOI":"10.3390\/pathogens10121584"},{"key":"5","doi-asserted-by":"crossref","unstructured":"A. Bowlin, H. Roys, H. Wanjala, et al.  \"Infection and Immunity.\"  89, \"Hypoxia-inducible factor signaling in macrophages promotes lymphangiogenesis in Leishmania major infection.\" e0012421 (2021)","DOI":"10.1128\/IAI.00124-21"},{"key":"7","doi-asserted-by":"crossref","unstructured":"A. Butler, P. Hoffman, P. Smibert, et al.  \"Nature Biotechnology.\"  36, \"Integrating single-cell transcriptomic data across different conditions, technologies, and species.\" 411 (2018)","DOI":"10.1038\/nbt.4096"},{"key":"8","doi-asserted-by":"crossref","unstructured":"M. B. Carneiro, M. E. Lopes, L. S. Hohman, et al.  \"Cell Host & Microbe.\"  27, \"Th1-Th2 cross-regulation controls early leishmania infection in the skin by modulating the size of the permissive monocytic host cell reservoir.\" 752 (2020)","DOI":"10.1016\/j.chom.2020.03.011"},{"key":"9","doi-asserted-by":"crossref","unstructured":"L. Carrera, R. T. Gazzinelli, R. Badolato, et al.  \"Journal of Experimental Medicine.\"  183, \"Leishmania promastigotes selectively inhibit interleukin 12 induction in bone marrow-derived macrophages from susceptible and resistant mice.\" 515 (1996)","DOI":"10.1084\/jem.183.2.515"},{"key":"10","doi-asserted-by":"crossref","unstructured":"L. P. Carvalho, E. J. Pearce, P. Scott,  \"Journal of Immunology.\"  181, \"Functional dichotomy of dendritic cells following interaction with Leishmania braziliensis: Infected cells produce high levels of TNF-alpha, whereas bystander dendritic cells are activated to promote T cell responses.\" 6473 (2008)","DOI":"10.4049\/jimmunol.181.9.6473"},{"key":"11","doi-asserted-by":"crossref","unstructured":"V. Chaparro, T. E. Graber, T. Alain, et al.  \"Scientific Reports.\"  12, \"Transcriptional profiling of macrophages reveals distinct parasite stage-driven signatures during early infection by Leishmania donovani.\" 6369 (2022)","DOI":"10.1038\/s41598-022-10317-6"},{"key":"12","doi-asserted-by":"crossref","unstructured":"J. F. Dermine, S. Scianimanico, C. Prive, et al.  \"Cell Microbiology.\"  2, \"Leishmania promastigotes require lipophosphoglycan to actively modulate the fusion properties of phagosomes at an early step of phagocytosis.\" 115 (2000)","DOI":"10.1046\/j.1462-5822.2000.00037.x"},{"key":"13","doi-asserted-by":"crossref","unstructured":"L. A. Dillon, R. Suresh, K. Okrah, et al.  \"BMC Genomics.\"  16, \"Simultaneous transcriptional profiling of Leishmania major and its murine macrophage host cell reveals insights into host\u2013pathogen interactions.\" 1108 (2015)","DOI":"10.1186\/s12864-015-2237-2"},{"key":"15","doi-asserted-by":"crossref","unstructured":"M. C. Fernandes, L. A. Dillon, A. T. Belew, et al.  \"mBio.\"  7, \"Dual transcriptome profiling of Leishmania-infected human macrophages reveals distinct reprogramming signatures.\" e00027 (2016)","DOI":"10.1128\/mBio.00027-16"},{"key":"16","doi-asserted-by":"crossref","unstructured":"G. Finak, A. Mcdavid, M. Yajima, et al.  \"Genome Biology.\"  16, \"MAST: A flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data.\" 278 (2015)","DOI":"10.1186\/s13059-015-0844-5"},{"key":"17","doi-asserted-by":"crossref","unstructured":"C. A. Fraga, M. V. Oliveira, L. R. Alves, et al.  \"Anais Brasileiros de Dermatologia.\"  87, \"Immunohistochemical profile of HIF-1alpha, VEGF-A, VEGFR2 and MMP9 proteins in tegumentary leishmaniasis.\" 709 (2012)","DOI":"10.1590\/S0365-05962012000500006"},{"key":"18","doi-asserted-by":"crossref","unstructured":"O. Franzen, L. M. Gan, J. L. M. Bjorkegren,  \"Database (Oxford).\"  2019, \"PanglaoDB: A web server for exploration of mouse and human single-cell RNA sequencing data.\" baz046 (2019)","DOI":"10.1093\/database\/baz046"},{"key":"19","doi-asserted-by":"crossref","unstructured":"U. Fruth, N. Solioz, J. A. Louis,  \"Journal of Immunology.\"  150, \"Leishmania major interferes with antigen presentation by infected macrophages.\" 1857 (1993)","DOI":"10.4049\/jimmunol.150.5.1857"},{"key":"20","doi-asserted-by":"crossref","unstructured":"R. Ghosh, J. J. Jawed, N. Roy, et al.  \"Experimental Parasitology.\"  239, \"Regulatory role of transcription factor-EB (TFEB) in parasite control through alteration of antigen presentation in visceral leishmaniasis.\" 108286 (2022)","DOI":"10.1016\/j.exppara.2022.108286"},{"key":"21","doi-asserted-by":"crossref","unstructured":"S. Guerrero-Castillo, F. Baertling, D. Kownatzki, et al.  \"Cell Metabolism.\"  25, \"The assembly pathway of mitochondrial respiratory chain complex I.\" 128 (2017)","DOI":"10.1016\/j.cmet.2016.09.002"},{"key":"22","doi-asserted-by":"crossref","unstructured":"S. He, Q. Gao, X. Wu, et al.  \"Journal of Cellular and Molecular Medicine.\"  26, \"NAD(+) ameliorates endotoxininduced acute kidney injury in a sirtuin1-dependent manner via GSK-3beta\/Nrf2 signalling pathway.\" 1979 (2022)","DOI":"10.1111\/jcmm.17222"},{"key":"23","doi-asserted-by":"crossref","unstructured":"S. Heyde, L. Philipsen, P. Formaglio, et al.  \"PLoS Pathogens.\"  14, \"CD11c-expressing Ly6C+CCR2+ monocytes constitute a reservoir for efficient Leishmania proliferation and cell-to-cell transmission.\" e1007374 (2018)","DOI":"10.1371\/journal.ppat.1007374"},{"key":"24","doi-asserted-by":"crossref","unstructured":"M. Jaramillo, M. A. Gomez, O. Larsson, et al.  \"Cell Host & Microbe.\"  9, \"Leishmania repression of host translation through mTOR cleavage is required for parasite survival and infection.\" 331 (2011)","DOI":"10.1016\/j.chom.2011.03.008"},{"key":"25","doi-asserted-by":"crossref","unstructured":"E. Z. Macosko, A. Basu, R. Satija, et al.  \"Cell.\"  161, \"Highly parallel genome-wide expression profiling of individual cells using nanoliter droplets.\" 1202 (2015)","DOI":"10.1016\/j.cell.2015.05.002"},{"key":"26","doi-asserted-by":"crossref","unstructured":"A. Mahnke, R. J. Meier, V. Schatz, et al.  \"Journal of Investigative Dermatology.\"  134, \"Hypoxia in Leishmania major skin lesions impairs the NO-dependent leishmanicidal activity of macrophages.\" 2339 (2014)","DOI":"10.1038\/jid.2014.121"},{"key":"28","doi-asserted-by":"crossref","unstructured":"D. Moreira, V. Rodrigues, M. Abengozar, et al.  \"PLoS Pathogens.\"  11, \"Leishmania infantum modulates host macrophage mitochondrial metabolism by hijacking the SIRT1-AMPK axis.\" e1004684 (2015)","DOI":"10.1371\/journal.ppat.1004684"},{"key":"29","doi-asserted-by":"crossref","unstructured":"M. Palmieri, S. Impey, H. Kang, et al.  \"Human Molecular Genetics.\"  20, \"Characterization of the CLEAR network reveals an integrated control of cellular clearance pathways.\" 3852 (2011)","DOI":"10.1093\/hmg\/ddr306"},{"key":"30","doi-asserted-by":"crossref","unstructured":"W. Qin, T. Yang, L. Ho, et al.  \"Journal of Biological Chemistry.\"  281, \"Neuronal SIRT1 activation as a novel mechanism underlying the prevention of Alzheimer disease amyloid neuropathology by calorie restriction.\" 21745 (2006)","DOI":"10.1074\/jbc.M602909200"},{"key":"31","doi-asserted-by":"crossref","unstructured":"I. Rabhi, S. Rabhi, R. Ben-Othman, et al.  \"PLoS Neglected Tropical Diseases.\"  6, \"Transcriptomic signature of Leishmania infected mice macrophages: A metabolic point of view.\" e1763 (2012)","DOI":"10.1371\/journal.pntd.0001763"},{"key":"32","doi-asserted-by":"crossref","unstructured":"N. E. Rodriguez, H. K. Chang, M. E. Wilson,  \"Infection and Immunity.\"  72, \"Novel program of macrophage gene expression induced by phagocytosis of Leishmania chagasi.\" 2111 (2004)","DOI":"10.1128\/IAI.72.4.2111-2122.2004"},{"key":"33","doi-asserted-by":"crossref","unstructured":"R. Rojas, L. Valderrama, M. Valderrama, et al.  \"Journal of Infectious Diseases.\"  193, \"Resistance to antimony and treatment failure in human Leishmania (Viannia) infection.\" 1375 (2006)","DOI":"10.1086\/503371"},{"key":"34","doi-asserted-by":"crossref","unstructured":"A. Ruhland, N. Leal, P. E. Kima,  \"Cellular Microbiology.\"  9, \"Leishmania promastigotes activate PI3K\/Akt signalling to confer host cell resistance to apoptosis.\" 84 (2007)","DOI":"10.1111\/j.1462-5822.2006.00769.x"},{"key":"35","doi-asserted-by":"crossref","unstructured":"V. Schatz, Y. Strussmann, A. Mahnke, et al.  \"Journal of Immunology.\"  197, \"Myeloid cell-derived HIF-1\u03b1 promotes control of Leishmania major.\" 4034 (2016)","DOI":"10.4049\/jimmunol.1601080"},{"key":"36","doi-asserted-by":"crossref","unstructured":"T. T. Schug  and X. Li  \"Aging (Albany NY).\"  2, \"Surprising sirtuin crosstalk in the heart.\" 129 (2010)","DOI":"10.18632\/aging.100128"},{"key":"37","doi-asserted-by":"crossref","unstructured":"P. Scott  and F. O. Novais  \"Nature Reviews Immunology.\"  16, \"Cutaneous leishmaniasis: Immune responses in protection and pathogenesis.\" 581 (2016)","DOI":"10.1038\/nri.2016.72"},{"key":"38","doi-asserted-by":"crossref","unstructured":"G. F. Spath  and S. M. Beverley  \"Experimental Parasitology.\"  99, \"A lipophosphoglycan-independent method for isolation of infective Leishmania metacyclic promastigotes by density gradient centrifugation.\" 97 (2001)","DOI":"10.1006\/expr.2001.4656"},{"key":"39","doi-asserted-by":"crossref","unstructured":"T. Stuart, A. Butler, P. Hoffman, et al.  \"Cell.\"  177, \"Comprehensive integration of single-cell data.\" 1888 (2019)","DOI":"10.1016\/j.cell.2019.05.031"},{"key":"40","doi-asserted-by":"crossref","unstructured":"C. Terrazas, S. Oghumu, S. Varikuti, et al.  \"Journal of Immunological Methods.\"  423, \"Uncovering Leishmania-macrophage interplay using imaging flow cytometry.\" 93 (2015)","DOI":"10.1016\/j.jim.2015.04.022"},{"key":"41","doi-asserted-by":"crossref","unstructured":"V. T. Vachharajani, T. Liu, X. Wang, et al.  \"Journal of Immunology Research.\"  2016, \"Sirtuins link inflammation and metabolism.\" 8167273 (2016)","DOI":"10.1155\/2016\/8167273"},{"key":"42","doi-asserted-by":"crossref","unstructured":"G. Venugopal, J. T. Bird, C. L. Washam, et al.  \"PLoS Neglected Tropical Diseases.\"  16, \"In vivo transcriptional analysis of mice infected with Leishmania major unveils cellular heterogeneity and altered transcriptomic profiling at single-cell resolution.\" e0010518 (2022)","DOI":"10.1371\/journal.pntd.0010518"},{"key":"43","doi-asserted-by":"crossref","unstructured":"T. Weinkopff, C. Konradt, D. A. Christian, et al.  \"Journal of Immunology.\"  197, \"Leishmania major infection-induced VEGF-A\/VEGFR-2 signaling promotes lymphangiogenesis that controls disease.\" 1823 (2016)","DOI":"10.4049\/jimmunol.1600717"},{"key":"44","doi-asserted-by":"crossref","unstructured":"T. Weinkopff, H. Roys, A. Bowlin, et al.  \"Infection and Immunity.\"  87, \"Leishmania infection induces macrophage vascular endothelial growth factor a production in an ARNT\/HIF-dependent manner.\" e00088 (2019)","DOI":"10.1128\/IAI.00088-19"},{"key":"45","doi-asserted-by":"crossref","unstructured":"D. C. Whyte  and R. Zufferey  \"Human Parasitic Diseases (Auckland).\"  9, \"Cutaneous leishmaniasis: Update on vaccine development.\" (2017)","DOI":"10.1177\/1179570017709019"},{"key":"46","doi-asserted-by":"crossref","unstructured":"H. T. Zeng, Y. C. Fu, W. Yu, et al.  \"Molecular Medicine Reports.\"  8, \"SIRT1 prevents atherosclerosis via liver Xreceptor and NFkappaB signaling in a U937 cell model.\" 23 (2013)","DOI":"10.3892\/mmr.2013.1460"},{"key":"47","unstructured":"G. X. Zheng, J. M. Terry, P. Belgrader, et al.  \"Nature Communications.\"  8, \"Massively parallel digital transcriptional profiling of single cells.\" 14049 (2017)"},{"key":"27","doi-asserted-by":"crossref","unstructured":"L. McInnes, J. 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