Hadad E, Rokach L, Veksler-Lublinsky I (2024). Empowering prediction of miRNA–mRNA interactions in species with limited training data through transfer learning. Heliyon, e28000.
Makarenkov N, Yoel U, Haim Y, Pincu Y, Bhandarkar NS, Shalev A, Shelef I, Liberty IF, Ben-Arie G, Yardeni D, Rudich A, Etzion O, Veksler-Lublinsky I (2024). Circulating isomiRs May Be Superior Biomarkers Compared to Their Corresponding miRNAs: A Pilot Biomarker Study of Using isomiR-Ome to Detect Coronary Calcium-Based Cardiovascular Risk in Patients with NAFLD. International Journal of Molecular Sciences 25(2):890.
Wojtas MN, Gonzales-Diaz M, Stavtseva N, Shoham Y, Verma P, Buberman A, Izhak I, Ouro A, Perez L, Borcel E, Nuñez A, Venero C, Veksler-Lublinsky I, Rotem-Dai N, Knafo S (2023). Interplay Between Hippocampal TACR3 and Systemic Testosterone in Regulating Anxiety-Associated Synaptic Plasticity. Molecular Psychiatry: 1-18.
Barkai G, Malul T, Eliaz Y, Eyal E and Veksler-Lublinsky I (2023). OffRisk: a docker image for annotating CRISPR off-target sites in the human genome. Bioinformatics Advances 3(1): vbad138.
Makarenkov N, Haim Y, Yoel U, Pincu Y, Tarnovscki T, Liberty IF, Kukeev I, Baraf L, Dukhno O, Zilber O, Blüher M, Rudich A and Veksler-Lublinsky I (2023). Circulating miRNAs detect high versus low visceral adipose tissue inflammation in patients living with obesity. The Journal of Clinical Endocrinology & Metabolism: dgad550.
Cohen N and Veksler-Lublinsky I (2023). A large-scale phylogeny-guided analysis of pseudogenes in Pseudomonas aeruginosa bacterium. Microbiology Spectrum 11(5):e0170423.
Pincu Y, Makarenkov N, Tsitrina A, Rosengarten-Levine M, Haim Y, Yoel U, Liberty IF, Dukhno O, Kukeev I, Veksler-Lublinsky I and Rudich A (2023). Visceral adipocyte size links obesity with dysmetabolism more than fibrosis, and both can be estimated by circulating miRNAs. Obesity (Silver Spring): 1-12.
Cohen S, Maximof E, Rokach S, Tadeski M and Veksler-Lublinsky I (2023). sInterBase: a comprehensive database of Escherichia coli sRNA-mRNA interactions. Bioinformatics. 2023 Apr 3;39(4):btad172.
Puzis R and Veksler-Lublinsky I (2023). Applying CVSS to Vulnerability Scoring in Cyber-Biological Systems. In: Greenbaum, D. (eds) Cyberbiosecurity. Springer, Cham.
Maixner N, Haim Y, Blüher M, Chalifa-Caspi V, Veksler-Lublinsky I, Makarenkov N, Yoel U, Bashan N, Liberty IF, Kukeev I, Dukhno O, Levy D and Rudich A (2022). Visceral Adipose Tissue E2F1-miRNA206/210 Pathway Associates with Type 2 Diabetes in Humans with Extreme Obesity. Cells 11(19):3046.
Degani G, Nevo Sarel M, Hajouj A, Hurvitz A, Veksler-Lublinsky I and Meerson A (2022). Whole-Genome Inter-Sex Variation in Russian Sturgeon (Acipenser gueldenstaedtii). International Journal of Molecular Sciences 23(16): 9469.
Panzade G, Li L, Hebbar S, Veksler-Lublinsky I and Zinovyeva A (2022). Global profiling and annotation of templated isomiRs dynamics across Caenorhabditis elegans development. RNA biology 19(1): 928-942.
Hebbar S, Panzade G, Vashisht AA, Wohlschlegel JA, Veksler-Lublinsky I, Zinovyeva A (2022). Functional identification of microRNA-centered complexes in C. elegans. Scientific Reports 12, 7133. [Link]
Duan Y, Veksler-Lublinsky I, Ambros V (2022). Critical contribution of 3' non-seed base pairing to the in vivo function of the evolutionarily conserved let-7a microRNA.Cell Reports 39 (4), 110745.
Ben Or G and Veksler-Lublinsky I (2021). Comprehensive machine-learning-based analysis of microRNA-target interactions reveals variable transferability of interaction rules across species. BMC Bioinformatics22, 264.
Degani G, Veksler-Lublinsky I, Meerson A (2021). Markers of Genetic Variation in Blue Gourami (Trichogaster trichopterus) as a Model for Labyrinth Fish. Biology 10(3):228.
Vieux KF, Prothro KP, Kelley LH, Palmer C, Maine EM, Veksler-Lublinsky I, McJunkin K (2021). Screening by deep sequencing reveals mediators of microRNA tailing in C. elegans. Nucleic Acids Research.
Cohen s, Rokach L, Motro Y, Moran-Gilad J, Veksler-Lublinsky I (2021). minMLST: machine learning for optimization of bacterial strain typing. Bioinformatics, 37(3), 303-311.
Vasquez-Rifo A*, Veksler-Lublinsky I*, Cheng Z, Ausubel FM, and Ambros V (2019). The Pseudomonas aeruginosa accessory genome elements influence virulence towards Caenorhabditis elegans. Genome Biology, 20 (1), 1-22 (* equal contribution and co-corresponding authors).
Li L, Veksler-Lublinsky I, Zinovyeva A (2019). HRPK-1, a conserved KH-domain protein, modulates microRNA activity during Caenorhabditis elegans development. PLoS Genetics. 15(10):e1008067.
Jonathan Engel, Isana Veksler-Lublinsky* and Michal Ziv-Ukelson* (2019). Constrained gene block discovery and its application to prokaryotic genomes. J Comput Biol. 26(7):745-766. (*Co-corresponding Authors)
Eilam-Frenkel B, Naaman H, Brkic G, Veksler-Lublinsky I, Rall G, Shemer-Avni Y, Gopas J (2018). MicroRNA 146-5p, miR-let-7c-5p, miR-221 and miR-345-5p are differentially expressed in Respiratory Syncytial Virus (RSV) persistently infected HEp-2 cells.Virus Res 251:34-39.
Ren Z, Veksler-Lublinsky I, Morrissey D and Ambros V (2016). Staufen Negatively Modulates microRNA Activity in C. elegans. G3 3;6(5):1227-37.
Zinovyeva AY*, Veksler-Lublinsky I*, Vashisht AA, Wohlschlegel JA and Ambros V (2015). C. elegans ALG-1 antimorphic mutations uncover functions for Argonaute in microRNA guide strand selection and passenger strand disposal. Proc Natl Acad Sci USA 112(38):E5271-80 (* equal contribution).
Sterling CH, Veksler-Lublinsky I and Ambros V (2014). An efficient and sensitive method for preparing cDNA libraries from scarce biological samples. Nucleic Acids Res 9;43(1):e1.
Veksler-Lublinsky I, Shemer-Avni Y, Meiri E, Bentwich Z, Kedem K and Ziv-Ukelson M (2012). Finding quasi-modules of human and viral miRNAs: case study in HCMV. BMC Bioinformatics, 13:322.
Meshesha MK*, Veksler-Lublinsky I*, Isakov O, Reichenstein I, Shomron N, Kedem K, Ziv-Ukelson M, Bentwich Z and Shemer-Avni Y (2012). The microRNA Transcriptome of Human Cytomegalovirus (HCMV). The Open Virology Journal, 6: 38-48. (* equal contribution)
Tuller T*, Veksler-Lublinsky I*, Gazit N, Kupiec M, Ruppin E and Ziv-Ukelson M (2011). Composite effects of gene determinants on the speed and density of ribosomes. Genome Biology, 12:R110. (* equal contribution)
Veksler-Lublinsky I, Shemer-Avni Y, Kedem K and Ziv-Ukelson M (2010). Gene bi-targeting by viral and human miRNAs. BMC Bioinformatics, 11:249.
Veksler-Lublinsky I, Barash D, Avisar C, Troim E, Chew P and Kedem K (2008). FASH: A web application for nucleotides sequence search. Source Code for Biology and Medicine 3:9.
Cohen A, Bocobza S, Veksler I, Gabdank I, Kedem K, Shapira M, Aharoni A, Nudler E and Barash D (2008). Computational identification of three-way junctions in folded RNAs: A case study in Arabidopsis. In Silico Biology 8(10).
Veksler-Lublinsky I, Ziv-Ukelson M, Barash D and Kedem K (2007). A structure based flexible search method for ncRNA motifs. Journal of Computational Biology, 14(7): 908-926.