Gorodkin J - Search Results

1

Structural profiles of human miRNA families from pairwise clustering.

Kaczkowski B, Torarinsson E, Reiche K, Havgaard JH, Stadler PF, Gorodkin J. Kaczkowski B, et al. Among authors: gorodkin j. Bioinformatics. 2009 Feb 1;25(3):291-4. doi: 10.1093/bioinformatics/btn628. Epub 2008 Dec 4. Bioinformatics. 2009. PMID: 19059941

2

Cross-species high-resolution transcriptome profiling suggests biomarkers and therapeutic targets for ulcerative colitis.

Yarani R, Palasca O, Doncheva NT, Anthon C, Pilecki B, Svane CAS, Mirza AH, Litman T, Holmskov U, Bang-Berthelsen CH, Vilien M, Jensen LJ, Gorodkin J, Pociot F. Yarani R, et al. Among authors: gorodkin j. Front Mol Biosci. 2023 Jan 5;9:1081176. doi: 10.3389/fmolb.2022.1081176. eCollection 2022. Front Mol Biosci. 2023. PMID: 36685283 Free PMC article.

3

RNA-Seq Study on the Longissimus thoracis Muscle of Italian Large White Pigs Fed Extruded Linseed with or without Antioxidants and Polyphenols.

Vegni J, Sun Y, Seemann SE, Zappaterra M, Davoli R, Dall'Olio S, Gorodkin J, Zambonelli P. Vegni J, et al. Among authors: gorodkin j. Animals (Basel). 2023 Mar 28;13(7):1187. doi: 10.3390/ani13071187. Animals (Basel). 2023. PMID: 37048443 Free PMC article.

4

MatrixPlot: visualizing sequence constraints.

Gorodkin J, Staerfeldt HH, Lund O, Brunak S. Gorodkin J, et al. Bioinformatics. 1999 Sep;15(9):769-70. doi: 10.1093/bioinformatics/15.9.769. Bioinformatics. 1999. PMID: 10498780

5

Semi-automated update and cleanup of structural RNA alignment databases.

Gorodkin J, Zwieb C, Knudsen B. Gorodkin J, et al. Bioinformatics. 2001 Jul;17(7):642-5. doi: 10.1093/bioinformatics/17.7.642. Bioinformatics. 2001. PMID: 11448882

6

A mini-greedy algorithm for faster structural RNA stem-loop search.

Gorodkin J, Lyngso RB, Stormo GD. Gorodkin J, et al. Genome Inform. 2001;12:184-93. Genome Inform. 2001. PMID: 11791237

7

Pairwise local structural alignment of RNA sequences with sequence similarity less than 40%.

Havgaard JH, Lyngsø RB, Stormo GD, Gorodkin J. Havgaard JH, et al. Among authors: gorodkin j. Bioinformatics. 2005 May 1;21(9):1815-24. doi: 10.1093/bioinformatics/bti279. Epub 2005 Jan 18. Bioinformatics. 2005. PMID: 15657094

8

The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search.

Havgaard JH, Lyngsø RB, Gorodkin J. Havgaard JH, et al. Among authors: gorodkin j. Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W650-3. doi: 10.1093/nar/gki473. Nucleic Acids Res. 2005. PMID: 15980555 Free PMC article.

9

Thousands of corresponding human and mouse genomic regions unalignable in primary sequence contain common RNA structure.

Torarinsson E, Sawera M, Havgaard JH, Fredholm M, Gorodkin J. Torarinsson E, et al. Among authors: gorodkin j. Genome Res. 2006 Jul;16(7):885-9. doi: 10.1101/gr.5226606. Epub 2006 Jun 2. Genome Res. 2006. PMID: 16751343 Free PMC article.

10

MicroRNA sequence motifs reveal asymmetry between the stem arms.

Gorodkin J, Havgaard JH, Ensterö M, Sawera M, Jensen P, Ohman M, Fredholm M. Gorodkin J, et al. Comput Biol Chem. 2006 Aug;30(4):249-54. doi: 10.1016/j.compbiolchem.2006.04.006. Epub 2006 Jun 22. Comput Biol Chem. 2006. PMID: 16798093

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