Technological advances in DNA sequencing are enabling new areas of genomic research allowing fine connections between genomic variants and phenotype. We are studying transcriptomes and genomes from a variety of eukaryotic and prokaryotic non model organisms and have contributed to gain biological insights. We have used the generalized Ruzzo-Tompa algorithm to find repeats in genomic sequences and made an implementation of the algorithm called RepWords. In another study related to the investigation of repeated sequences in genomes we tested the possibility that mammalian-wide interspersed repeats (MIRs) contribute functional enhancers to the human genome. We found that MIRs are highly concentrated in enhancers of the K562 and HeLa human cell-types and MIR-derived enhancers were found to be a rich source of transcription factor binding sites. Therefore, MIRs can exercise a regulatory function in the human genome and this study contributes to explain why their role as the most ancient family of transposable elements.
| Medina-Cordoba, Luz K; Chande, Aroon T; Rishishwar, Lavanya et al. (2018) Genome Sequences of 15 Klebsiella sp. Isolates from Sugarcane Fields in Colombia's Cauca Valley. Genome Announc 6: |
| Conley, Andrew B; Rishishwar, Lavanya; Norris, Emily T et al. (2017) A Comparative Analysis of Genetic Ancestry and Admixture in the Colombian Populations of Chocó and Medellín. G3 (Bethesda) 7:3435-3447 |
| Rishishwar, Lavanya; Mariño-Ramírez, Leonardo; Jordan, I King (2017) Benchmarking computational tools for polymorphic transposable element detection. Brief Bioinform 18:908-918 |
| Wang, Lu; Rishishwar, Lavanya; Mariño-Ramírez, Leonardo et al. (2017) Human population-specific gene expression and transcriptional network modification with polymorphic transposable elements. Nucleic Acids Res 45:2318-2328 |
| Vera Alvarez, Roberto; Medeiros Vidal, Newton; Garzón-Martínez, Gina A et al. (2017) Workflow and web application for annotating NCBI BioProject transcriptome data. Database (Oxford) 2017: |
| Hernández-Fernández, Javier; Pinzón, Andrés; Mariño-Ramírez, Leonardo (2017) De novo transcriptome assembly of loggerhead sea turtle nesting of the Colombian Caribbean. Genom Data 13:18-20 |
| Rishishwar, Lavanya; Wang, Lu; Clayton, Evan A et al. (2017) Population and clinical genetics of human transposable elements in the (post) genomic era. Mob Genet Elements 7:1-20 |
| Duplat-Bermúdez, L; Ruiz-Medrano, R; Landsman, D et al. (2016) Dataset of Arabidopsis plants that overexpress FT driven by a meristem-specific KNAT1 promoter. Data Brief 8:520-8 |
| Medina-Rivas, Miguel A; Norris, Emily T; Rishishwar, Lavanya et al. (2016) Chocó, Colombia: a hotspot of human biodiversity. Rev Biodivers Neotrop 6:45-54 |
| Bernal, Johan F; Donado-Godoy, Pilar; Arévalo, Alejandra et al. (2016) Whole-Genome Sequence of Multidrug-Resistant Campylobacter coli Strain COL B1-266, Isolated from the Colombian Poultry Chain. Genome Announc 4: |
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