RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: F47
Target: RNA-dependent RNA polymerase (3Dpol)
Type of nucleic acid: ssRNA
Sequence: 5'GGGAAGGGAUCCAAUCUACAAAUUCGUUAACAGAAAACCUCAGUUGCUGGGUUGUUUUCACUGCAAACUUGACAAAGCUA3'
Sequence length: 80
GC content: 0.4125
Affinity: Kd: 375 ± 46 nM
Pool type: 5′-GATAATACGACTCACTATAGGGAATGGATCCACACATCTACGA-N30-TTCGAAGCAGTTCAGACGTCACTT-3′
Pool random region: 30
Binding buffer/conditions: 50 mM Tris-HCl at pH 7.5, 100 mM NaCl, 1 mM dithiothreitol [DTT], 1 mM EDTA
Buffer type: Tris Buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " Foot-and-mouth disease virus causes a highly contagious disease of agricultural livestock and is of enormous economic importance. Replication of the RNA genome of the virus, via negative strand intermediates, involves an RNA-dependent RNA polymerase (3Dpol). RNA aptamers specific to this enzyme have been selected and characterized. Some of these molecules inhibit enzymatic activity in vitro."
Reference (2006, RNA ): Ellingham, M., Bunka, D. H., Rowlands, D. J., & Stonehouse, N. J. (2006). Selection and characterization of RNA aptamers to the RNA-dependent RNA polymerase from foot-and-mouth disease virus. RNA (New York, N.Y.), 12(11), 1970–1979. https://doi.org/10.1261/rna.161006
Aptamer: MAMB0
Target: Mammaglobin B (MGB2)
Type of nucleic acid: ssDNA
Sequence: 5'CATGCTTACCTATAGTGAACCCCAACACACGTGTAGATCCTGCGGCTTTGAGAACTGACTCATAC3'
Sequence length: 65
GC content: 0.4769230769230769
Affinity: Kd: 80 ± 14 nM
Pool type: 5′-CATGCTTACCTATAGTGAAC-N24-CTTTGAGAACTGACTCTAC-3′
Pool random region: 24
Binding buffer/conditions: 150 mM Tris, 150 mM NaCl, 5 mM KCl, 5 mM MgCl2, pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: 10 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic: " Mammaglobin B (MGB2) and mammaglobin A (MGB1) are proteins expressed in metastatic breast cancers. The early detection of circulating tumor cells (CTCs) in breast cancer patients is crucial to decrease mortality rate. Herein, novel aptamers were successfully selected and characterized against MGB2 and MGB1 proteins using a hybrid SELEX approach. The results obtained in this study indicate the great potential for the use of aptamers to detect MGB1 and MGB2 protein biomarkers, expressed on the surface of breast CTCs."
Reference (2017, Sci Rep ): Hassan, E. M., Willmore, W. G., McKay, B. C., & DeRosa, M. C. (2017). In vitro selections of mammaglobin A and mammaglobin B aptamers for the recognition of circulating breast tumor cells. Scientific reports, 7(1), 14487. https://doi.org/10.1038/s41598-017-13751-z