Jan Gorodkin
Professor
- 2015
- Published
Gender and obesity specific MicroRNA expression in adipose tissue from lean and obese pigs
Mentzel, Caroline M. Junker, Anthon, Christian, Jacobsen, M. J., Karlskov-Mortensen, Peter, Bruun, Camilla Vibeke Sichlau, Jørgensen, Claus Bøttcher, Gorodkin, Jan, Cirera, Susanna & Fredholm, Merete, 29 Jul 2015, In: P L o S One. 10, 7, 19 p., e0131650.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Transcriptomic landscape of lncRNAs in inflammatory bowel disease
Mirza, A. H., Bang-Berthelsen, C. H., Seemann, Ernst Stefan, Pan, X., Frederiksen, K. S., Vilien, M., Gorodkin, Jan & Pociot, Flemming, 2015, In: Genome Medicine. 7, 22 p., 39.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Differential and coherent processing patterns from small RNAs
Pundhir, Sachin & Gorodkin, Jan, 13 Jul 2015, In: Scientific Reports. 5, 16 p., 12062.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Emerging applications of read profiles towards the functional annotation of the genome
Pundhir, Sachin, Poirazi, P. & Gorodkin, Jan, 19 May 2015, In: Frontiers in Genetics. 6, 11 p., 188.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Emerging tools for RNA structure analysis in polymorphic data
Radhakrishnan, S., Seemann, Ernst Stefan & Gorodkin, Jan, 2015, In: Biozoom. 2, p. 10-13 4 p.Research output: Contribution to journal › Journal article › Communication
- Published
Quality Assessment of Domesticated Animal Genome Assemblies
Seemann, Ernst Stefan, Anthon, Christian, Palasca, Oana & Gorodkin, Jan, 2015, In: Bioinformatics and Biology Insights. 9, Suppl 4, p. 49-58 10 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Simultaneous DNA and RNA mapping of somatic mitochondrial mutations across diverse human cancers
Stewart, J. B., Alaei-Mahabadi, B., Radhakrishnan, S., Samuelsson, T., Gorodkin, Jan, Gustafsson, C. M. & Larsson, E., Jun 2015, In: P L o S Genetics. 11, 6, 15 p., e1005333.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Full-length RNA structure prediction of the HIV-1 genome reveals a conserved core domain
Sükösd, Z., Andersen, E. S., Seemann, Ernst Stefan, Jensen, M. K., Hansen, M., Gorodkin, Jan & Kjems, J., 2 Dec 2015, In: Nucleic Acids Research. 43, 21, p. 10168-79 12 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
RNA 3D modules in genome-wide predictions of RNA 2D structure
Theis, C., Zirbel, C. L., Zu Siederdissen, C. H., Anthon, Christian, Hofacker, I. L., Nielsen, Henrik & Gorodkin, Jan, 2015, In: PLOS ONE. 10, 10, 13 p., e0139900.Research output: Contribution to journal › Journal article › Research › peer-review
- 2014
- Published
Structured RNAs and synteny regions in the pig genome
Anthon, Christian, Tafer, H., Havgaard, Jakob Hull, Thomsen, B., Hedegaard, J., Seemann, Ernst Stefan, Pundhir, Sachin, Kehr, S., Bartschat, S., Nielsen, M., Nielsen, R. O., Fredholm, Merete, Stadler, P. F. & Gorodkin, Jan, 2014, In: BMC Genomics. 15, 27 p., 459.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Concepts and introduction to RNA bioinformatics
Gorodkin, Jan, Hofacker, I. L. & Ruzzo, W. L., 2014, In: Methods in molecular biology (Clifton, N.J.). 1097, p. 1-31 31 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
RNA Structural Alignments, Part I: Sankoff-Based Approaches for Structural Alignments
Havgaard, Jakob Hull & Gorodkin, Jan, 2014, RNA Sequence, Structure, and Function: Computational and Bioinformatic Methods. Gorodkin, J. & Ruzzo, W. L. (eds.). p. 275-90 16 p. (Methods in molecular biology (Clifton, N.J.)).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
Protein-driven inference of miRNA-disease associations
Mørk, S., Pletscher-Frankild, S., Palleja, A., Gorodkin, Jan & Jensen, Lars Juhl, 2014, In: Bioinformatics (Oxford, England). 30, 3, p. 392-397 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Spatially conserved regulatory elements identified within human and mouse Cd247 gene using high-throughput sequencing data from the ENCODE project.
Pundhir, Sachin, Hannibal, T. D., Bang-Berthelsen, C. H., Wegener, A. K., Pociot, Flemming, Holmberg, D. I. & Gorodkin, Jan, 2 May 2014, In: Gene. 545, 1, p. 80-87 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Computational approaches for predicting mutation effects on RNA Sstructure
Radhakrishnan, S. & Gorodkin, Jan, 2014, Bioinformatics. Persson, B. (ed.). Elsevier, p. 111-121 11 p. (Comprehensive biomedical physics, Vol. 6).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- Published
Transcriptome-wide analysis of UTRs in non-small cell lung cancer reveals cancer-related genes with SNV-induced changes on RNA secondary structure and miRNA target sites
Radhakrishnan, S., Wenzel, Anne, Novotny, P., Tang, X., Kalari, K. R. & Gorodkin, Jan, 2014, In: P L o S One. 9, 1, 16 p., e82699.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
De Novo Discovery of Structured ncRNA Motifs in Genomic Sequences
Ruzzo, W. L. & Gorodkin, Jan, 2014, RNA Sequence, Structure, and Function: Computational and Bioinformatic Methods. Gorodkin, J. & Ruzzo, W. L. (eds.). Vol. 1097. p. 303-18 16 p. (Methods in molecular biology (Clifton, N.J.)).Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review
- 2013
- Published
Discovery of a divergent HPIV4 from respiratory secretions using second and third generation metagenomic sequencing
Alquezar Planas, D. E., Mourier, T., Bruhn, C. A. W., Hansen, Anders Johannes, Vitcetz, S. N., Mørk, S., Gorodkin, Jan, Nielsen, H. A., Guo, Y., Sethuraman, A., Paxinos, E. E., Shan, T., Delwart, E. L. & Nielsen, L. P., 3 Sep 2013, In: Scientific Reports. 3, 10 p., 2468.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Global Analysis of Genetic and Epigenetic differences associated with Obesity
Jacobsen, M. J., Mentzel, Caroline M. Junker, Kogelman, L., Mark, T., Karlskov-Mortensen, Peter, Bruun, Camilla Vibeke Sichlau, Cirera, Susanna, Gorodkin, Jan, Kadarmideen, H., Barrès, Romain, Jørgensen, Claus Bøttcher & Fredholm, Merete, 2013.Research output: Contribution to conference › Poster › Research › peer-review
- Published
RNAsnp: efficient detection of local RNA secondary structure changes induced by SNPs: efficient detection of local RNA secondary structure changes induced by SNPs
Radhakrishnan, S., Tafer, H., Seemann, Ernst Stefan, Hofacker, I. L., Stadler, P. F. & Gorodkin, Jan, 2013, In: Human Mutation. 34, 4, p. 546-556 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The RNAsnp web server: predicting SNP effects on local RNA secondary structure
Radhakrishnan, S., Tafer, H., Seemann, Ernst Stefan, Hofacker, I. L., Stadler, P. F. & Gorodkin, Jan, 2013, In: Nucleic Acids Research. 41, p. W475-W479 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Automated identification of RNA 3D modules with discriminative power in RNA structural alignments
Theis, C., Höner zu Siederdissen, C., Hofacker, I. L. & Gorodkin, Jan, 2013, In: Nucleic Acids Research. 41, 22, p. 9999-10009 11 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2012
- Published
Multiple independent analyses reveal only transcription factors as an enriched functional class associated with microRNAs
Croft, L. J., Szklarczyk, D., Jensen, Lars Juhl & Gorodkin, Jan, 2012, In: B M C Systems Biology. 6, 1, p. 90Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Analyses of pig genomes provide insight into porcine demography and evolution
Groenen, M. A., Archibald, A. L., Uenishi, H., Tuggle, C. K., Takeuchi, Y., Rothschild, M. F., Rogel-Gaillard, C., Park, C., Milan, D., Megens, H-J., Li, S., Larkin, D. M., Kim, H., Frantz, L. A. F., Caccamo, M., Ahn, H., Aken, B. L., Anselmo, A., Anthon, C., Auvil, L. & 116 others, , 2012, In: Nature. 491, 7424, p. 393-398 6 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Comparative ncRNA gene and structure prediction using Foldalign and FoldalignM
Havgaard, Jakob Hull, Kaur, S. & Gorodkin, Jan, 2012, In: Current Protocols in Bioinformatics. 39, p. 12.11.1-12.11.15 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 4356276
Most downloads
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2873
downloads
Porcine transcriptome analysis based on 97 non-normalized cDNA libraries and assembly of 1,021,891 expressed sequence tags
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
1379
downloads
454 pyrosequencing based transcriptome analysis of Zygaena filipendulae with focus on genes involved in biosynthesis of cyanogenic glucosides
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
1306
downloads
Transcriptome-wide analysis of UTRs in non-small cell lung cancer reveals cancer-related genes with SNV-induced changes on RNA secondary structure and miRNA target sites
Research output: Contribution to journal › Journal article › Research › peer-review
Published