RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: GVI-11
Target: Grass carp reovirus (GCRV)-infected CIK cells
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGTCCGTCGGTTCGCCTTGCGAGTGCACGCCGCCAGCCGTTACATAAAGTCTGCCCACTCGAAGGACGCAGATGAAGTCTC3'
Sequence length: 102
GC content: 0.5882352941176471
Affinity: Kd: 278.66 nM via flow cytometry
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-50N-CGAAGGACGCAGATGAAGTCTC-3'
Pool random region: 50
Binding buffer/conditions: 10% FBS (Life Technologies), 1.0 g/L bovine serum albumin (Solarbio, Beijing, China), 5 g/L glucose, 0.1 mg/ml yeast tRNA (Invitrogen, Carlsbad, CA, USA) and 5 mM MgCl2) and phosphatebuffered saline (PBS; 10 mM Na2HPO4.12 H2O, 2 mM KH2PO4,137 mM NaCl)
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic: " detection assay for the rapid and sensitive diagnosis of grass carp reovirus (GCRV) infection in its early stage. These aptamers have great potentials in development of rapid diagnosis technology and antiviral agents against GCRV infection in aquaculture."
Additional information: Forward primer was labelled with 6-carboxyfluorescein (FAM) (5'-FAMGACGCTTACTCAGGTGTGACTCG-3'). Reverse primer was labelled with biotin (5'-Biotin-GAGACTTCATCTGCGTCCTTCG-3').
Reference (2021, J Fish Dis ): Yu, Q., Liu, M., Wu, S., Xiao, H., Qin, X., & Li, P. (2021). Generation and characterization of aptamers against grass carp reovirus infection for the development of rapid detection assay. Journal of fish diseases, 44(1), 33–44. https://doi.org/10.1111/jfd.13265
Aptamer: p24_apt1
Target: Human immunodifficiency virus type 1 (HIV-1) p24 Recombinant Protein
Type of nucleic acid: ssDNA
Sequence: 5'AGATACTGCCATTCATTGCATCCACATCGGAGAACAGGCGCACTGTCGGAGGAACCGCAACGTCGAGTACTAAGCTATGTGTCGA3'
Sequence length: 85
GC content: 0.5176470588235295
Affinity: Kd: 314 ± 101.2 nM via direct ELONA
Pool type: 5'-AGATACTGCCATTCATTGCAT-N40-TCGAGTACTAAGCTATGTGTCGA-3'
Pool random region: 40
Binding buffer/conditions: 50 mM Tris–HCl, 100 mM NaCl, 5 mM KCl, 1 mM MgCl2, and 0.01% Tween 20; pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Diagnostic: " The results demonstrate that the proposed sensing platform can be used to diagnose various diseases requiring high sensitivity, specificity, and accuracy. additionally, an ultrasensitive platform for the detection of protein biomarkers based on the integration of an immunoassay, development of disease diagnosis system based on recombinase polymerase amplification (RPA) using heterogeneous sandwich (H-sandwich) DNA aptamers"
Additional information: *pool not reported, determined from sequence reporting
Reference (2021, Anal Chem ): Kang, J., Jang, H., Yeom, G., & Kim, M. G. (2021). Ultrasensitive Detection Platform of Disease Biomarkers Based on Recombinase Polymerase Amplification with H-Sandwich Aptamers. Analytical chemistry, 93(2), 992–1000. https://doi.org/10.1021/acs.analchem.0c03822
Aptamer: Ebola_apt3
Target: Ebola virus (EBOV) recombinant NP his-tagged
Type of nucleic acid: ssDNA
Sequence: 5'GATGTGAGTGACGTGGATCGAGCGGATGTGAAGGCTGAAAGTGGCTTTGGGCGGTCGTAAGTGTCACAGAGCATGCAACAAGACC3'
Sequence length: 85
GC content: 0.5411764705882353
Affinity: Kd: 23 ± 14.2 nM via direct ELONA
Pool type: 5'-GATGTGAGTGACGTGGATCGAG-N40-GTCACAGAGCATGCAACAAGACC-3'
Pool random region: 40
Binding buffer/conditions: 50 mM Tris–HCl, 100 mM NaCl, 5 mM KCl, 1 mM MgCl2, and 0.01% Tween 20; pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Diagnostic: " The results demonstrate that the proposed sensing platform can be used to diagnose various diseases requiring high sensitivity, specificity, and accuracy. additionally, an ultrasensitive platform for the detection of protein biomarkers based on the integration of an immunoassay, development of disease diagnosis system based on recombinase polymerase amplification (RPA) using heterogeneous sandwich (H-sandwich) DNA aptamers"
Additional information: *pool not reported, determined from sequence reporting
Reference (2021, Anal Chem ): Kang, J., Jang, H., Yeom, G., & Kim, M. G. (2021). Ultrasensitive Detection Platform of Disease Biomarkers Based on Recombinase Polymerase Amplification with H-Sandwich Aptamers. Analytical chemistry, 93(2), 992–1000. https://doi.org/10.1021/acs.analchem.0c03822
Aptamer: SARS-CoV-2_apt2
Target: SARS-CoV-2 [2019-nCoV (novel coronavirus 2019)] nucleocapsid-his recombinant protein
Type of nucleic acid: ssDNA
Sequence: 5'ATCCAGAGTGACGCAGCAAACCCAAGCAAACTACCTCTATACCCTTCGACCTTCATCATGGACACGGTGGCTTAGT3'
Sequence length: 76
GC content: 0.5
Affinity: Kd: 0.57 ± 0.13 nM via direct ELONA
Pool type: 5'-ATCCAGAGTGACGCAGCA-N40-TGGACACGGTGGCTTAGT-3'
Pool random region: 40
Binding buffer/conditions: 50 mM Tris–HCl, 100 mM NaCl, 5 mM KCl, 1 mM MgCl2, and 0.01% Tween 20; pH 7.4
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Diagnostic: " The results demonstrate that the proposed sensing platform can be used to diagnose various diseases requiring high sensitivity, specificity, and accuracy. additionally, an ultrasensitive platform for the detection of protein biomarkers based on the integration of an immunoassay, development of disease diagnosis system based on recombinase polymerase amplification (RPA) using heterogeneous sandwich (H-sandwich) DNA aptamers"
Additional information: *pool not reported, determined from sequence reporting
Reference (2021, Anal Chem ): Kang, J., Jang, H., Yeom, G., & Kim, M. G. (2021). Ultrasensitive Detection Platform of Disease Biomarkers Based on Recombinase Polymerase Amplification with H-Sandwich Aptamers. Analytical chemistry, 93(2), 992–1000. https://doi.org/10.1021/acs.analchem.0c03822
Aptamer: Asp-3
Target: Spores of toxic aspergillus species: A. fumigatus
Type of nucleic acid: ssDNA
Sequence: 5'ATCCAGAGTGACGCAGCACGTTTGGGCGGTATGAGTTCGGGGGTATACCGCAGTGGACACGGTGGCTTAGT3'
Sequence length: 71
GC content: 0.5774647887323944
Affinity: Kd: 80.12 ± 7.01 based on fluorescence intensity
Pool type: 5′-ATCCAGAGTGACGCAGCA-N35-TGGACACGGTGGCTTAGT-3′
Pool random region: 35
Binding buffer/conditions: PBS, pH 7.0 containing 1.4 mM MgCl2, 1 μg μL−1 BSA, and 1 μg μL−1 salmon sperm DNA
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Biosensor: " The selected Asp-3 aptamer, conjugated with detection sensors, could be an effective biorecognition element for the spores of three toxic Aspergillus species. The results indicate a successful spore-SELEX procedure and the noticeable specificity of Asp-3, suggesting a potential application of Asp-3 in detecting specific Aspergillus species in an indoor environment."
Additional information: utilized Spore-SELEX based on Cell-SELEX
Reference (2021, RSC Adv ): Seo, J. W., Kim, J. Y., Kim, D. H., Oh, J. J., Kim, Y. J., & Kim, G. H. (2021). Selection and characterization of toxic Aspergillus spore-specific DNA aptamer using spore-SELEX. RSC advances, 11(5), 2608–2615. https://doi.org/10.1039/d0ra09571k
Aptamer: Asp-3
Target: Spores of toxic aspergillus species: A. flavus
Type of nucleic acid: ssDNA
Sequence: 5'ATCCAGAGTGACGCAGCACGTTTGGGCGGTATGAGTTCGGGGGTATACCGCAGTGGACACGGTGGCTTAGT3'
Sequence length: 71
GC content: 0.5774647887323944
Affinity: Kd: 35.17 ± 12.11 based on fluorescence intensity
Pool type: 5′-ATCCAGAGTGACGCAGCA-N35-TGGACACGGTGGCTTAGT-3′
Pool random region: 35
Binding buffer/conditions: PBS, pH 7.0 containing 1.4 mM MgCl2, 1 μg μL−1 BSA, and 1 μg μL−1 salmon sperm DNA
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Biosensor: " The selected Asp-3 aptamer, conjugated with detection sensors, could be an effective biorecognition element for the spores of three toxic Aspergillus species. The results indicate a successful spore-SELEX procedure and the noticeable specificity of Asp-3, suggesting a potential application of Asp-3 in detecting specific Aspergillus species in an indoor environment."
Additional information: utilized Spore-SELEX based on Cell-SELEX
Reference (2021, RSC Adv ): Yu, Q., Liu, M., Li, M., Su, M., Xiao, R., Tong, G., Qin, X., &amp; Li, P. (2021). Generating aptamers for specific recognition against soft-shelled turtle iridovirus infection. Aquaculture, 535, 736348. https://doi.org/10.1016/j.aquaculture.2021.736348
Aptamer: Asp-3
Target: Spores of three toxic aspergillus species: A. niger
Type of nucleic acid: ssDNA
Sequence: 5'ATCCAGAGTGACGCAGCACGTTTGGGCGGTATGAGTTCGGGGGTATACCGCAGTGGACACGGTGGCTTAGT3'
Sequence length: 71
GC content: 0.5774647887323944
Affinity: Kd:101.19 ± 25.41 based on fluorescence intensity
Pool type: 5′-ATCCAGAGTGACGCAGCA-N35-TGGACACGGTGGCTTAGT-3′
Pool random region: 35
Binding buffer/conditions: PBS, pH 7.0 containing 1.4 mM MgCl2, 1 μg μL−1 BSA, and 1 μg μL−1 salmon sperm DNA
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Biosensor: " The selected Asp-3 aptamer, conjugated with detection sensors, could be an effective biorecognition element for the spores of three toxic Aspergillus species. The results indicate a successful spore-SELEX procedure and the noticeable specificity of Asp-3, suggesting a potential application of Asp-3 in detecting specific Aspergillus species in an indoor environment."
Additional information: utilized Spore-SELEX based on Cell-SELEX
Reference (2021, RSC Adv ): Yu, Q., Liu, M., Li, M., Su, M., Xiao, R., Tong, G., Qin, X., &amp; Li, P. (2021). Generating aptamers for specific recognition against soft-shelled turtle iridovirus infection. Aquaculture, 535, 736348. https://doi.org/10.1016/j.aquaculture.2021.736348
Aptamer: LYST1
Target: Soft-shelled turtle iridovirus (STIV)-infected fathead minnow (FHM) cells
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGGCATGCATTGGGTCTGAGTCTAGCTTTGGTTTGTTGCCCGTCTCACGCTGCGAAGGACGCAGATGAAGTCTC3'
Sequence length: 95
GC content: 0.5473684210526316
Affinity: Kd: 191 ± 12 nM via flow cytometry
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-N50-CGAAGGACGCAGATGAAGTCTC-3′
Pool random region: 50
Binding buffer/conditions: 5 g/L glucose, 10% FBS (Life Technologies), 1.0 g/L bovine serum albumin (Solarbio, Beijing, China), 0.1 mg/mL yeast tRNA (Invitrogen, Carlsbad, CA, USA), and 5 mM MgCl2 in ultra pure water
Divalent salt: MgCl
Buffer type: Other Buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Drug Delivery: " Soft-shelled turtle iridovirus (STIV) causes devastating virus disease in farmed soft-shelled turtles (Trionyx sinensis). In this study, single-stranded DNA (ssDNA) aptamers were generated against STIV-infected Fathead minnow (FHM) cells via Cell-SELEX (Cell based-Systematic Evolution of Ligands by Exponential enrichment technology). It is the first time that aptamers against STIV-infected cells have been selected and characterized. The aptamers have great potential in development of rapid diagnostic assays and targeted antiviral drugs against STIV in aquaculture."
Additional information: utilized Cell-SELEX
This paper claimed: "It is the first time that aptamers against STIV-infected cells have been selected and characterized. The aptamers have great potential in development of rapid diagnostic assays and targeted antiviral drugs against STIV in aquaculture." There is another paper published in 2015 with same/similar target: DOI:  https://doi.org/10.1186/s12917-015-0559-6
Reference (2021,Int Immunopharmacol): Ferreira, D., Barbosa, J., Sousa, D. A., Silva, C., Melo, L., Avci-Adali, M., Wendel, H. P., & Rodrigues, L. R. (2021). Selection of aptamers against triple negative breast cancer cells using high throughput sequencing. Scientific reports, 11(1), 8614. https://doi.org/10.1038/s41598-021-87998-y
Aptamer: LYST2
Target: Soft-shelled turtle iridovirus (STIV)-infected fathead minnow (FHM) cells
Type of nucleic acid: ssDNA
Sequence: 5'GACGCTTACTCAGGTGTGACTCGACACCCAAATTCCGTCAGTCGTGCTCGTAATTCACAACACCGCTGGCCATCGAAGGACGCAGATGAAGTCTC3'
Sequence length: 95
GC content: 0.5368421052631579
Affinity: Kd: 497 ± 39 nM via flow cytometry
Pool type: 5'-GACGCTTACTCAGGTGTGACTCG-N50-CGAAGGACGCAGATGAAGTCTC-3′
Pool random region: 50
Binding buffer/conditions: 5 g/L glucose, 10% FBS (Life Technologies), 1.0 g/L bovine serum albumin (Solarbio, Beijing, China), 0.1 mg/mL yeast tRNA (Invitrogen, Carlsbad, CA, USA), and 5 mM MgCl2 in ultra pure water
Divalent salt: MgCl
Buffer type: Other Buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Drug Delivery: " Soft-shelled turtle iridovirus (STIV) causes devastating virus disease in farmed soft-shelled turtles (Trionyx sinensis). In this study, single-stranded DNA (ssDNA) aptamers were generated against STIV-infected Fathead minnow (FHM) cells via Cell-SELEX (Cell based-Systematic Evolution of Ligands by Exponential enrichment technology). It is the first time that aptamers against STIV-infected cells have been selected and characterized. The aptamers have great potential in development of rapid diagnostic assays and targeted antiviral drugs against STIV in aquaculture."
Additional information: utilized Cell-SELEX
This paper claimed: "It is the first time that aptamers against STIV-infected cells have been selected and characterized. The aptamers have great potential in development of rapid diagnostic assays and targeted antiviral drugs against STIV in aquaculture." There is another paper published in 2015 with same/similar target: DOI:  https://doi.org/10.1186/s12917-015-0559-6
Reference (2021,Int Immunopharmacol): Ferreira, D., Barbosa, J., Sousa, D. A., Silva, C., Melo, L., Avci-Adali, M., Wendel, H. P., & Rodrigues, L. R. (2021). Selection of aptamers against triple negative breast cancer cells using high throughput sequencing. Scientific reports, 11(1), 8614. https://doi.org/10.1038/s41598-021-87998-y
Aptamer: Apt1
Target: MDA-MB-231 cells, Human
Type of nucleic acid: ssDNA
Sequence: 5′GCCTGTTGTGAGCCTCCTAACGCATCCACCGTGAATATTGTAACGCTATATGTGAGTGGCTAAGTGCACCCATGCTTATTCTTGTCTCCC3′
Sequence length: 90
GC content: 0.4888888888888889
Affinity: Kd: 44.3 ± 13.3 nM
Pool type: 5′-GCCTGTTGTGAGCCTCCTAAC-N49-CATGCTTATTCTTGTCTCCC-3′
Pool random region: 49
Binding buffer/conditions: Phosphate-buffered saline (PBS) 1X pH 7.4, with 1 mM of CaCl2·2H2O [Panreac] and 0.5 mM of MgCl2·6H2O [VWR]
Divalent salt: MgCl/CaCl
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Diagnostic and Drug Delivery: " Soft-shelled turtle iridovirus (STIV) causes devastating virus disease in farmed soft-shelled turtles (Trionyx sinensis). In this study, single-stranded DNA (ssDNA) aptamers were generated against STIV-infected Fathead minnow (FHM) cells via Cell-SELEX (Cell based-Systematic Evolution of Ligands by Exponential enrichment technology). It is the first time that aptamers against STIV-infected cells have been selected and characterized. The aptamers have great potential in development of rapid diagnostic assays and targeted antiviral drugs against STIV in aquaculture."
Reference (2021, Sci Rep ): Ferreira, D., Barbosa, J., Sousa, D. A., Silva, C., Melo, L., Avci-Adali, M., Wendel, H. P., & Rodrigues, L. R. (2021). Selection of aptamers against triple negative breast cancer cells using high throughput sequencing. Scientific reports, 11(1), 8614. https://doi.org/10.1038/s41598-021-87998-y
Aptamer: apVRK8
Target: MDA-MB-231 cells, Human
Type of nucleic acid: ssDNA
Sequence: 5′ACGCTCGGATGCCACTACAGGGAGGGGGGGGGAAAGTAAGCGGGGGGTCGGCGGCCTCATGGACGTGCTGGTGA3′
Sequence length: 74
GC content: 0.6756756756756757
Affinity: Kd: 45.82 ± 5.01 nM
Pool type: 5′-ACGCTCGGATGCCACTACAG-N35-CTCATGGACGTGCTGGTGA-3′
Pool random region: 35
Binding buffer/conditions: 10 mM sodium phosphate, 0.15 M NaCl, pH7.5 (PBS), MgCl2 1 mM, BSA 0.2%
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " In our work, we initially performed the isolation and characterization of three aptamers that specifically recognized the protein kinase VRK1 with an affinity in the nanomolar range. Furthermore, we treated the MCF7 cells with these aptamers, which resulted in a decrease in cyclin D1 and retinoblastoma protein levels preventing the cell cycle progression by G1 phase arrest and inducing apoptosis. These preliminary results suggest that our aptamers are specific inhibitors of VRK1 that might be used in cancer treatments. For future therapeutic-applications it is important that these aptamers are stable for entering into cells and reaching their target without being degraded."
Reference (2021, Pharmaceuticals (Basel) ): Carrión-Marchante, R., Frezza, V., Salgado-Figueroa, A., Pérez-Morgado, M. I., Martín, M. E., & González, V. M. (2021). DNA Aptamers against Vaccinia-Related Kinase (VRK) 1 Block Proliferation in MCF7 Breast Cancer Cells. Pharmaceuticals (Basel, Switzerland), 14(5), 473. https://doi.org/10.3390/ph14050473
Aptamer: apVRK28
Target: Vaccinia-related kinase (VRK1), Human
Type of nucleic acid: ssDNA
Sequence: 5'ACGCTCGGATGCCACTACAGGGACGGCGGATGGGGGCGGTGGGTGGGTTTCTTGCCTCATGGACGTGCTGGTGA3′
Sequence length: 74
GC content: 0.6486486486486487
Affinity: Kd: 60.06 ± 7.05 nM
Pool type: 5′-ACGCTCGGATGCCACTACAG-N35-CTCATGGACGTGCTGGTGA-3′
Pool random region: 35
Binding buffer/conditions: 10 mM sodium phosphate, 0.15 M NaCl, pH7.5 (PBS), MgCl2 1 mM, BSA 0.2%
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " In our work, we initially performed the isolation and characterization of three aptamers that specifically recognized the protein kinase VRK1 with an affinity in the nanomolar range. Furthermore, we treated the MCF7 cells with these aptamers, which resulted in a decrease in cyclin D1 and retinoblastoma protein levels preventing the cell cycle progression by G1 phase arrest and inducing apoptosis. These preliminary results suggest that our aptamers are specific inhibitors of VRK1 that might be used in cancer treatments. For future therapeutic-applications it is important that these aptamers are stable for entering into cells and reaching their target without being degraded."
Reference (2021, Pharmaceuticals (Basel) ): Carrión-Marchante, R., Frezza, V., Salgado-Figueroa, A., Pérez-Morgado, M. I., Martín, M. E., & González, V. M. (2021). DNA Aptamers against Vaccinia-Related Kinase (VRK) 1 Block Proliferation in MCF7 Breast Cancer Cells. Pharmaceuticals (Basel, Switzerland), 14(5), 473. https://doi.org/10.3390/ph14050473
Aptamer: apVRKF33
Target: Vaccinia-related kinase (VRK1), Human
Type of nucleic acid: ssDNA
Sequence: 5'ACGCTCGGATGCCACTACAGGTTGCGAGGTGGGGGGTGGGTAGGGTGGGAAGTGCCCTCATGGACGTGCTGGTGA3'
Sequence length: 75
GC content: 0.64
Affinity: Kd: 128.8 ± 55.56 nM
Pool type: 5′-ACGCTCGGATGCCACTACAG-N35-CTCATGGACGTGCTGGTGA-3′
Pool random region: 35
Binding buffer/conditions: 10 mM sodium phosphate, 0.15 M NaCl, pH7.5 (PBS), MgCl2 1 mM, BSA 0.2%
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " In our work, we initially performed the isolation and characterization of three aptamers that specifically recognized the protein kinase VRK1 with an affinity in the nanomolar range. Furthermore, we treated the MCF7 cells with these aptamers, which resulted in a decrease in cyclin D1 and retinoblastoma protein levels preventing the cell cycle progression by G1 phase arrest and inducing apoptosis. These preliminary results suggest that our aptamers are specific inhibitors of VRK1 that might be used in cancer treatments. For future therapeutic-applications it is important that these aptamers are stable for entering into cells and reaching their target without being degraded."
Reference (2021, Pharmaceuticals (Basel) ): Carrión-Marchante, R., Frezza, V., Salgado-Figueroa, A., Pérez-Morgado, M. I., Martín, M. E., & González, V. M. (2021). DNA Aptamers against Vaccinia-Related Kinase (VRK) 1 Block Proliferation in MCF7 Breast Cancer Cells. Pharmaceuticals (Basel, Switzerland), 14(5), 473. https://doi.org/10.3390/ph14050473
Aptamer: HPA-2
Target: Helicobacter pylori (H. pylori)
Type of nucleic acid: ssDNA
Sequence: 5′AAGGAGCAGCGTGGAGGTTACCAGGAGGACCCTATTCTCGTGTATCGACGAGATCCAGTGACCACGACGACACACCCTAA3′
Sequence length: 80
GC content: 0.55
Affinity: Kd: 19.3 ± 3.2 nM
Pool type: 5′-AAGGAGCAGCGTGGAGGTTA-N40-ACCACGACGACACACCCTAA-3′
Pool random region: 40
Binding buffer/conditions: 100 mM NaCl, 5 mM KCl, 50 mM Tris–HCl, and 1 mM MgCl2, pH 7.5
Divalent salt: MgCl
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: Detection: " A new competitive detection method for H. pylori based on HPA-2 was then developed and optimized to detect H. pylori and showed no specificity for other bacteria. Moreover, we developed a new sensor to detect H. pylori with the naked eye for 5 min using illumination from a hand-held flashlight. In food inspection, this sensor could distinguish positive and negative using the naked eye within 5 min. Our results indicated that this sensor could be used to screen food samples. Our study provides a framework for the development of other aptamer-based methods for the rapid detection of pathogenic bacteria."
Reference (2021, ACS Omega ): Wu, H., Gu, L., Ma, X., Tian, X., Fan, S., Qin, M., Lu, J., Lyu, M., & Wang, S. (2021). Rapid Detection of Helicobacter pylori by the Naked Eye Using DNA Aptamers. ACS omega, 6(5), 3771–3779. https://doi.org/10.1021/acsomega.0c05374
Aptamer: Apta33
Target: Nucleoprotein (NP) of the crimean-congo hemorrhagic fever (CCHF) virus
Type of nucleic acid: ssDNA
Sequence: 5'GCCTGTTGTGAGCCTCCTAACCCGTAGGGTTAGGGGCGGATCGTCAGGGTGGATAAGGCAGGGAGACAAGAATAAGCA3'
Sequence length: 78
GC content: 0.5641025641025641
Affinity: Kd: 6.62 × 10^-10 M - (didn't provide in nM)
Pool type: 5'-GCCTGTTGTGAGCCTCCTAAC-N40-GGGAGACAAGAATAAGCA-3'
Pool random region: 40
Binding buffer/conditions: PBS
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " The discovered aptamer can be used in various aptamer-based rapid diagnostic tests for the diagnosis of CCHF virus infection. The ELASA assay was successfully diagnosed with clinical specimens with very high sensitivity and specificity. This simple, specific, and the sensitive method can be used as a rapid and early diagnosis tool, as well as the point of care near the patient."
Reference (2021, Sci Rep ): Jalali, T., Salehi-Vaziri, M., Pouriayevali, M. H., & Gargari, S. L. (2021, June 16). Aptamer based diagnosis of crimean-congo hemorrhagic fever from clinical specimens. Retrieved from https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8209218/