Genomic Bioinformatics Laboratory

Publications

  • Morag S, Salmon-Divon M. 2019. Characterizing Human Cell Types and Tissue Origin Using the Benford Law. Cells 8:1024.
  • Salmon-Divon M, Zahavi T, Kornspan D. 2019. Transcriptomic Analysis of the Brucella melitensis Rev.1 Vaccine Strain in an Acidic Environment: Insights Into Virulence Attenuation. Front Microbiol 10:250.
  • Michaelovsky E, Carmel M, Frisch A, Salmon-Divon M, Pasmanik-Chor M, Weizman A, Gothelf D. 2019. 22q11.2 deletion-related schizophrenia risk gene-set and pathways: A genealogical molecular approach. Transl Psychiatry. 9:15.
  • Yahav G, Gershanov S, Salmon-Divon M, Ben-Zvi H, Mircus G, Goldenberg-Cohen N, Fixler D. 2018. Pathogen Detection Using Frequency Domain Fluorescent Lifetime Measurements. IEEE Trans Biomed Eng.
  • Segal T, Salmon-Divon M*, Gerlitz G*. 2018. The Heterochromatin Landscape in Migrating Cells and the Importance of H3K27me3 for Associated Transcriptome Alterations. Cells 7:205.
  • Yerushalmi GM, Salmon-Divon M, Ophir L, Yung Y, Baum M, Coticchio G, Fadini R, Mignini-Renzini M, Dal Canto M, Machtinger R, Maman E, Hourvitz A. 2018. Characterization of the miRNA regulators of the human ovulatory cascade. Sci Rep 8:15605.
  • Zahavi T, Sonnenblick A, Shimshon Y, Kadouri L, Peretz T, Salmon AY, Salmon-Divon M. 2018. SYK expression level distinguishes control from BRCA1-mutated lymphocytes. Cancer Manag Res 10.
  • Salmon-Divon M, Banai M, Bardenstein S, Blum SE, Kornspan D. 2018. Complete genome sequence of the live attenuated vaccine strain Brucella melitensis Rev.1. Genome Announc 6.
  • Schnytzer Y, Simon-Blecher N, Li J, Ben-Asher HW, Salmon-Divon M, Achituv Y, Hughes ME, Levy O. 2018. Tidal and diel orchestration of behaviour and gene expression in an intertidal mollusc. Sci Rep 8.
  • Gershanov S, Toledano H, Michowiz S, Barinfeld O, Pinhasov A, Goldenberg-Cohen N, Salmon-Divon M. 2018. MicroRNA–mRNA expression profiles associated with medulloblastoma subgroup 4. Cancer Manag Res 10.
  • Hershkovitz-Rokah O, Geva P, Salmon-Divon M, Shpilberg O, Liberman-Aronov S. 2018. Network analysis of microRNAs, genes and their regulation in diffuse and follicular B-cell lymphomas. Oncotarget 9.
  • Salmon-Divon M, Yeheskel A, Kornspan D. 2018. Genomic analysis of the original Elberg Brucella melitensis Rev.1 vaccine strain reveals insights into virulence attenuation. Virulence 9:1436–1448.
  • Yahav G, Gershanov S, Salmon-Divon M, Ben-Zvi H, Mircus G, Goldenberg-Cohen N, Fixler D. 2018. Frequency domain fluorescence lifetime imaging microscopy system for detecting inflammatory cells. Progress in Biomedical Optics and Imaging – Proceedings of SPIE.
  • Adir M, Salmon-Divon M, Combelles CMH, Mansur A, Cohen Y, Machtinger R. 2017. In vitro exposure of human luteinized mural granulosa cells to dibutyl phthalate affects global gene expression. Toxicol Sci 160.
  • Drori E, Levy D, Smirin-Yosef P, Rahimi O, Salmon-Divon M. 2017. CircosVCF: Circos Visualization of whole-genome sequence variations stored in VCF files. Bioinformatics 33.
  • Gershanov S, Michowiz S, Toledano H, Yahav G, Barinfeld O, Hirshberg A, Ben-Zvi H, Mircus G, Salmon-DIvon M, Fixler D, Goldenberg-Cohen N. 2017. Fluorescence Lifetime Imaging Microscopy, a Novel Diagnostic Tool for Metastatic Cell Detection in the Cerebrospinal Fluid of Children with Medulloblastoma. Sci Rep 7.
  • Basel-Vanagaite L, Pillar N, Isakov O, Smirin-Yosef P, Lagovsky I, Orenstein N, Salmon-Divon M, Tamary H, Zaft T, Bazak L, Meyerovitch J, Pelli T, Botchan S, Farberov L, Weissglas-Volkov D, Shomron N. 2017. X-linked elliptocytosis with impaired growth is related to mutated AMMECR1. Gene 606.
  • Drori E, Rahimi O, Marrano A, Henig Y, Brauner H, Salmon-Divon M, Netzer Y, Prazzoli ML, Stanevsky M, Failla O, Weiss E, Grando MS. 2017. Collection and characterization of grapevine genetic resources (Vitis vinifera) in the Holy Land, towards the renewal of ancient winemaking practices. Sci Rep 7.
  • Maor-Landaw K, Waldman Ben-Asher H, Karako-Lampert S, Salmon-Divon M, Prada F, Caroselli E, Goffredo S, Falini G, Dubinsky Z, Levy O. 2017. Mediterranean versus Red sea corals facing climate change, a transcriptome analysis. Sci Rep 7.
  • Smirin-Yosef P, Zuckerman-Levin N, Tzur S, Granot Y, Cohen L, Sachsenweger J, Borck G, Lagovsky I, Salmon-Divon M, Iesmüller L, Basel-Vanagaite L. 2017. A biallelic mutation in the homologous recombination repair gene SPIDR is associated with human gonadal dysgenesis. J Clin Endocrinol Metab 102.
  • Zahavi T, Yahav G, Shimshon Y, Gershanov S, Kaduri L, Sonnenblick A, Fixler D, Salmon AY, Salmon-Divon M. 2016. Utilizing fluorescent life time imaging microscopy technology for identify carriers of BRCA2 mutation. Biochem Biophys Res Commun 480.
  • Karthik D, Stelzer G, Gershanov S, Baranes D, Salmon-Divon M. 2016. Elucidating tissue specific genes using the Benford distribution. BMC Genomics 17.
  • Dominissini D, Nachtergaele S, Moshitch-Moshkovitz S, Peer E, Kol N, Ben-Haim MS, Dai Q, Di Segni A, Salmon-Divon M, Clark WC, Zheng G, Pan T, Solomon O, Eyal E, Hershkovitz V, Han D, Doré LC, Amariglio N, Rechavi G, He C. 2016. The dynamic N1 -methyladenosine methylome in eukaryotic messenger RNA. Nature 530.
  • Salmon-Divon M*, Carasso E*, Carmeli Y, Banin E, Navon-Venezia S. 2016. Draft genome sequences of two multidrug-resistant extended-spectrum-β-lactamaseproducing Klebsiella pneumoniae strains causing bloodstream infections. Genome Announc 4.
  • Salmon-Divon M*, Zahavi T*, Lanton T*, Salmon A, Peretz T, Galun E, Axelrod JH, Sonnenblick A. 2016. Sorafenib treatment during partial hepatectomy reduces tumorgenesis in an inflammation-associated liver cancer model. Oncotarget 7:4860–70.
  • Basel-Vanagaite L, Smirin-Yosef P, Essakow JL, Tzur S, Lagovsky I, Maya I, Pasmanik-Chor M, Yeheskel A, Konen O, Orenstein N, Weisz Hubshman M, Drasinover V, Magal N, Peretz Amit G, Zalzstein Y, Zeharia A, Shohat M, Straussberg R, Monté D, Salmon-Divon M, Behar DM. 2015. Homozygous MED25 mutation implicated in eye–intellectual disability syndrome. Hum Genet 134.
  • Nesher E, Koman I, Gross M, Tikhonov T, Bairachnaya M, Salmon-Divon M, Levin Y, Gerlitz G, Michaelevski I, Yadid G, Pinhasov A. 2015. Synapsin IIb as a functional marker of submissive behavior. Sci Rep 5.
  • Straussberg R, Ganelin-Cohen E, Goldberg-Stern H, Tzur S, Behar DM, Smirin-Yosef P, Salmon-Divon M, Basel-Vanagaite L. 2015. Lethal neonatal rigidity and multifocal seizure syndrome – Report of another family with a BRAT1 mutation. Eur J Paediatr Neurol 19.
  • Zahavi T, Stelzer G, Strauss L, Salmon AY, Salmon-Divon M. 2015. VennBLAST-Whole transcriptome comparison and visualization tool. Genomics 105.
  • Geula S, Moshitch-Moshkovitz S, Dominissini D, Mansour AA, Kol N, Salmon-Divon M, Hershkovitz V, Peer E, Mor N, Manor YS, Ben-Haim MS, Eyal E, Yunger S, Pinto Y, Jaitin DA, Viukov S, Rais Y, Krupalnik V, Chomsky E, Zerbib M, Maza I, Rechavi Y, Massarwa R, Hanna S, Amit I, Levanon EY, Amariglio N, Stern-Ginossar N, Novershtern N, Rechavi G, Hanna JH. 2015. m6A mRNA methylation facilitates resolution of naïve pluripotency toward differentiation. Science (80- ) 347.
  • Yerushalmi GM, Salmon-Divon M, Yung Y, Maman E, Kedem A, Ophir L, Elemento O, Coticchio G, DalCanto M, Renzinu MM, Fadini R, Hourvitz A. 2014. Characterization of the human cumulus cell transcriptome during final follicular maturation and ovulation. Mol Hum Reprod 20.
  • Aviv G, Tsyba K, Steck N, Salmon-Divon M, Cornelius A, Rahav G, Grassl GA, Gal-Mor O. 2013. A unique megaplasmid contributes to stress tolerance and pathogenicity of an emergent Salmonella enterica serovar Infantis strain. Environ Microbiol.
  • Karako-Lampert S, Zoccola D, Salmon-Divon M, Katzenellenbogen M, Tambutté S, Bertucci A, Hoegh-Guldberg O, Deleury E, Allemand D, Levy O. 2014. Transcriptome Analysis of the Scleractinian Coral Stylophora pistillata. PLoS One 9:e88615.
  • Dvinge H, Git A, Gräf S, Salmon-Divon M, Curtis C, Sottoriva A, Zhao Y, Hirst M, Armisen J, Miska EA, Chin S-F, Provenzano E, Turashvili G, Green A, Ellis I, Aparicio S, Caldas C. 2013. The shaping and functional consequences of the microRNA landscape in breast cancer. Nature 497:378–82.
  • Salmon AY, Salmon-Divon M, Zahavi T, Barash Y, Levy-Drummer RS, Jacob-Hirsch J, Peretz T. 2013. Determination of molecular markers for BRCA1 and BRCA2 heterozygosity using gene expression profiling. Cancer Prev Res (Phila) 6:82–90.
  • Dominissini D, Moshitch-Moshkovitz S, Salmon-Divon M, Amariglio N, Rechavi G. 2013. Transcriptome-wide mapping of N(6)-methyladenosine by m(6)A-seq based on immunocapturing and massively parallel sequencing. Nat Protoc 8:176–89.
  • Metzakopian E, Lin W, Salmon-Divon M, Dvinge H, Andersson E, Ericson J, Perlmann T, Whitsett JA, Bertone P, Ang S-L. 2012. Genome-wide characterization of Foxa2 targets reveals upregulation of floor plate genes and repression of ventrolateral genes in midbrain dopaminergic progenitors. Development 139:2625–34.
  • Dominissini D, Moshitch-Moshkovitz S, Schwartz S, Salmon-Divon M, Ungar L, Osenberg S, Cesarkas K, Jacob-Hirsch J, Amariglio N, Kupiec M, Sorek R, Rechavi G. 2012. Topology of the human and mouse m6A RNA methylomes revealed by m6A-seq. Nature 485:201–6.
  • Reynolds N, Salmon-Divon M, Dvinge H, Hynes-Allen A, Balasooriya G, Leaford D, Behrens A, Bertone P, Hendrich B. 2012. NuRD-mediated deacetylation of H3K27 facilitates recruitment of Polycomb Repressive Complex 2 to direct gene repression. EMBO J 31:593–605.
  • Kaplan A, Kotzer S, Almeida CR, Kohen R, Halpert G, Salmon-Divon M, Köhler K, Höglund P, Davis DM, Mehr R. 2011. Simulations of the NK cell immune synapse reveal that activation thresholds can be established by inhibitory receptors acting locally. J Immunol 187:760–73.
  • Brodin P, Lakshmikanth T, Mehr R, Johansson MH, Duru AD, Achour A, Salmon-Divon M, Kärre K, Höglund P, Johansson S. 2010. Natural killer cell tolerance persists despite significant reduction of self MHC class I on normal target cells in mice. PLoS One 5.
  • Salmon-Divon M, Dvinge H, Tammoja K, Bertone P. 2010. PeakAnalyzer: genome-wide annotation of chromatin binding and modification loci. BMC Bioinformatics 11:415.
  • Salmon-Divon M*, Git A*, Dvinge H*, Osborne M, Kutter C, Hadfield J, Bertone P, Caldas C. 2010. Systematic comparison of microarray profiling, real-time PCR, and next-generation sequencing technologies for measuring differential microRNA expression. RNA 16:991–1006.
  • Salmon-Divon M*, Johansson S*, Johansson MH, Pickman Y, Brodin P, Kärre K, Mehr R, Höglund P. 2009. Probing natural killer cell education by Ly49 receptor expression analysis and computational modelling in single MHC class I mice. PLoS One 4:e6046.
  • Stern MZ, Gupta SK, Salmon-Divon M, Haham T, Barda O, Levi S, Wachtel C, Nilsen TW, Michaeli S. 2009. Multiple roles for polypyrimidine tract binding (PTB) proteins in trypanosome RNA metabolism. RNA 15:648–65.
  • Levy A, Eyal M, Hershkovits G, Salmon-Divon M, Klutstein M, Katcoff DJ. 2008. Yeast linker histone Hho1p is required for efficient RNA polymerase I processivity and transcriptional silencing at the ribosomal DNA. Proc Natl Acad Sci U S A 105:11703–8.
  • Tkacz ID, Cohen S, Salmon-Divon M, Michaeli S. 2008. Identification of the heptameric Lsm complex that binds U6 snRNA in Trypanosoma brucei. Mol Biochem Parasitol 160:22–31.
  • Barth S, Shalem B, Hury A, Tkacz ID, Liang X-H, Uliel S, Myslyuk I, Doniger T, Salmon-Divon M, Unger R, Michaeli S. 2008. Elucidating the role of C/D snoRNA in rRNA processing and modification in Trypanosoma brucei. Eukaryot Cell 7:86–101.
  • Kotzer S, Salmon-Divon M, Kaplan A, Almeida CR, Höglund P, Davis DM, Mehr R. 2008. Modeling the influence of molecule and cell surface micro-domain distribution on the formation of T cell immunological synapses2007 IEEE/NIH Life Science Systems and Applications Workshop, LISA.
  • Tkacz ID, Lustig Y, Stern MZ, Biton M, Salmon-Divon M, Das A, Bellofatto V, Michaeli S. 2007. Identification of novel snRNA-specific Sm proteins that bind selectively to U2 and U4 snRNAs in Trypanosoma brucei. RNA 13:30–43.
  • Johansson S, Johansson M, Rosmaraki E, Vahlne G, Mehr R, Salmon-Divon M, Lemonnier F, Kärre K, Höglund P. 2005. Natural killer cell education in mice with single or multiple major histocompatibility complex class I molecules. J Exp Med 201:1145–55.
  • Salmon-Divon M, Höglund P, Johansson MH, Johansson S, Mehr R. 2005. Computational modeling of human natural killer cell development suggests a selection process regulating coexpression of KIR with CD94/NKG2A. Mol Immunol 42:397–403.
  • Nitzan Y, Salmon-Divon M, Shporen E, Malik Z. 2004. ALA induced photodynamic effects on gram positive and negative bacteria. Photochem Photobiol Sci 3:430–5.
  • Salmon-Divon M, Nitzan Y, Malik Z. 2004. Mechanistic aspects of Escherichia coli photodynamic inactivation by cationic tetra-meso(N-methylpyridyl)porphine. Photochem Photobiol Sci 3:423–9.
  • Salmon-Divon M, Höglund P, Mehr R. 2003. Models for natural killer cell repertoire formation. Clin Dev Immunol 10:183–92.
  • Salmon-Divon M, Höglund P, Mehr R. 2003. Generation of the natural killer cell repertoire: the sequential vs. the two-step selection model. Bull Math Biol 65:199–218.

* Equal contribution