RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: 2′,4′-BNA/LNA (A#23)
Target: Thrombin, Human
Type of nucleic acid: 2',4'-BNA/LNA-DNA
Sequence: 5′TCGCCTTGCCGGATCGCAGACtCttGACAGGACACAtGCACGCGGGGGCtTGGTCCGTGAGCCTGACACC3′
Sequence length: 70
GC content: 0.6428571428571429
Affinity: Kd: 20nM
Pool type: 5′-TCGCCTTGCCGGATCGCAGA-N30-TGGTCCGTGAGCCTGACACC-3′
Pool random region: 30
Binding buffer/conditions: 20 mM Tris-HCl buffer (pH 7.40), MgCl2 (1 mM) and NaCl (10 mM)
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: Therapeutic and Diagnostic: " Biostability is a critical property of medicinal and biological agents, and 2′,4′-BNA/LNA analogs are well known to have superior nuclease resistance than other types of sugar-modified nucleotides. Therefore, to create nucleic acid aptamers that are extremely stable under physiological conditions, attempts to use 2′,4′-BNA/LNA in SELEX experiments have been made."
Additional information: DNA library contained B/L thymidines (t's) instead of the natural thymidines in the non-primer region and 8 B/L nucleotides placed at intervals of two residues in the primer region. 2′,4′-BNA/LNA library was enzymatically prepared from 70-mer oligodeoxyribonucleotides (ODNs) comprising the variable region (30 bases) flanked by the forward and reverse primer regions (20 bases each) 2′,4′-BNA/LNA -->2'-O,4'-C-methylene bridged/locked nucleic acid
Reference (2013, Bioorg Med Chem Lett ): Kasahara, Y., Irisawa, Y., Ozaki, H., Obika, S., & Kuwahara, M. (2013). 2',4'-BNA/LNA aptamers: CE-SELEX using a DNA-based library of full-length 2'-O,4'-C-methylene-bridged/linked bicyclic ribonucleotides. Bioorganic & medicinal chemistry letters, 23(5), 1288–1292. https://doi.org/10.1016/j.bmcl.2012.12.093
Aptamer: 2′,4′-BNA/LNA (A#40)
Target: Thrombin, Human
Type of nucleic acid: 2',4'-BNA/LNA-DNA
Sequence: 5′TCGCCTTGCCGGATCGCAGACTCTTAACAGGACTCATGCACGGGGGGGCTTGGTCCGTGAGCCTGACACC3′
Sequence length: 70
GC content: 0.6285714285714286
Affinity: Kd: 18nM
Pool type: 5′-TCGCCTTGCCGGATCGCAGA-N30-TGGTCCGTGAGCCTGACACC-3′
Pool random region: 30
Binding buffer/conditions: 20 mM Tris-HCl buffer (pH 7.40), MgCl2 (1 mM) and NaCl (10 mM)
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Modified nucleoside triphosphates with corresponding foreign functionalities (ATS tail)
Application as quoted in the referenced paper: Therapeutic and Diagnostic: " Biostability is a critical property of medicinal and biological agents, and 2′,4′-BNA/LNA analogs are well known to have superior nuclease resistance than other types of sugar-modified nucleotides. Therefore, to create nucleic acid aptamers that are extremely stable under physiological conditions, attempts to use 2′,4′-BNA/LNA in SELEX experiments have been made."
Additional information: DNA library contained B/L thymidines (t's) instead of the natural thymidines in the non-primer region and 8 B/L nucleotides placed at intervals of two residues in the primer region. 2′,4′-BNA/LNA library was enzymatically prepared from 70-mer oligodeoxyribonucleotides (ODNs) comprising the variable region (30 bases) flanked by the forward and reverse primer regions (20 bases each) 2′,4′-BNA/LNA -->2'-O,4'-C-methylene bridged/locked nucleic acid
Reference (2013, Bioorg Med Chem Lett ): Kasahara, Y., Irisawa, Y., Ozaki, H., Obika, S., & Kuwahara, M. (2013). 2',4'-BNA/LNA aptamers: CE-SELEX using a DNA-based library of full-length 2'-O,4'-C-methylene-bridged/linked bicyclic ribonucleotides. Bioorganic & medicinal chemistry letters, 23(5), 1288–1292. https://doi.org/10.1016/j.bmcl.2012.12.093
Aptamer: 2′,4′-BNA/LNA (A#40)
Target: Thrombin, Rat
Type of nucleic acid: 2',4'-BNA/LNA-DNA
Sequence: 5′TCGCCTTGCCGGATCGCAGACtCttAACAGGACtCAtGCACGGGGGGGCtTGGTCCGTGAGCCTGACACC3′
Sequence length: 70
GC content: 0.6285714285714286
Affinity: Kd: 4.2nM
Pool type: 5′-TCGCCTTGCCGGATCGCAGA-N30-TGGTCCGTGAGCCTGACACC-3′
Pool random region: 30
Binding buffer/conditions: 20 mM Tris-HCl buffer (pH 7.40), MgCl2 (1 mM) and NaCl (10 mM)
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Modified nucleoside triphosphates with corresponding foreign functionalities (ATS tail)
Application as quoted in the referenced paper: Therapeutic and Diagnostic: " Biostability is a critical property of medicinal and biological agents, and 2′,4′-BNA/LNA analogs are well known to have superior nuclease resistance than other types of sugar-modified nucleotides. Therefore, to create nucleic acid aptamers that are extremely stable under physiological conditions, attempts to use 2′,4′-BNA/LNA in SELEX experiments have been made."
Additional information: DNA library contained B/L thymidines (t's) instead of the natural thymidines in the non-primer region and 8 B/L nucleotides placed at intervals of two residues in the primer region. 2′,4′-BNA/LNA library was enzymatically prepared from 70-mer oligodeoxyribonucleotides (ODNs) comprising the variable region (30 bases) flanked by the forward and reverse primer regions (20 bases each) 2′,4′-BNA/LNA -->2'-O,4'-C-methylene bridged/locked nucleic acid
Reference (2013, Bioorg Med Chem Lett ): Kasahara, Y., Irisawa, Y., Ozaki, H., Obika, S., & Kuwahara, M. (2013). 2',4'-BNA/LNA aptamers: CE-SELEX using a DNA-based library of full-length 2'-O,4'-C-methylene-bridged/linked bicyclic ribonucleotides. Bioorganic & medicinal chemistry letters, 23(5), 1288–1292. https://doi.org/10.1016/j.bmcl.2012.12.093
Aptamer: FAIR-6
Target: Hyper-Interleukin-6 (IL-6) (a fusion protein of sIL-6R and IL-6)
Type of nucleic acid: 2'-fluoro-RNA
Sequence: 5'AAUGCUAAUACGACUCACUAUAGGAAGAAAGAGGUCUGAGACAUUGUAAGUAGUGUAGGCUGUGGGAGUUAUAGGGGUGGAUGUGGAGUGGGGUGAAGCAACGUCAACUCCAGAAG3'
Sequence length: 116
GC content: 0.4655172413793103
Affinity: Kd: 40.9 ± 12.7
Pool type: 5'-AAUGCUAAUACGACUCACUAUAGGAAGAAAGAGGUCUGAGACAUU-N50-AAGCAACGUCAACUCCAGAAG-3'
Pool random region: 50
Binding buffer/conditions: 137 mM NaCl; 2.7 mM KCl; 6.5 mM Na2HPO4; 1.5 mM KH2PO4; 3 mM MgCl2; and 1 µg BSA/µL at pH 7.5
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: Not reported
Application as quoted in the referenced paper: Drug Delivery and Therapeutic: " we reported on the in vitro selection of RNA aptamers binding to the human IL-6 receptor (IL-6R) with nanomolar affinity. One aptamer, namely AIR-3A, was 19 nt in size and able to deliver bulky cargos into IL-6R-presenting cells. The work described here represents one further step to potentially apply stabilized IL-6R-binding RNA aptamers in IL-6R-connected diseases, like multiple myeloma and hepatocellular carcinoma."
Additional information: realted article: https://doi.org/10.4161/rna.9.1.18062. 2'F-modified CTP and UTP (2′-fluoro RNA (pyrimidines))
Reference (2013,RNA Biol): Meyer, C., Berg, K., Eydeler-Haeder, K., Lorenzen, I., Grötzinger, J., Rose-John, S., & Hahn, U. (2014). Stabilized Interleukin-6 receptor binding RNA aptamers. RNA biology, 11(1), 57–65. https://doi.org/10.4161/rna.27447
Aptamer: AIR-3A
Target: Interleukin-6 receptor (IL-6R), Human
Type of nucleic acid: 2'-fluoro-RNA
Sequence: 5'GGAAGAAAGAGGUCUGAGACAUUCUGGGGAGGCUGUGGUGAGGGCUUCUGGAGUUGACGUUGCUU3'
Sequence length: 65
GC content: 0.5384615384615384
Affinity: Kd: 23.1 ± 4.0 nM
Pool type: 5'-GGAAGAAAGAGGTCTGAGACATTCT–N50–CTTCTGGAGTTGACGTTGCTT-3'
Pool random region: 50
Binding buffer/conditions: 1x PBS/MgCl2 (137 mM NaCl; 2.7 mM KCl; 6.5 mM Na2HPO4; 1.5 mM KH2PO4; and 3 mM MgCl2 at pH 7.5)
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 7.5
Molecular weight of target: Not reported
Application as quoted in the referenced paper: Drug Delivery and Therapeutic: " we reported on the in vitro selection of RNA aptamers binding to the human IL-6 receptor (IL-6R) with nanomolar affinity. One aptamer, namely AIR-3A, was 19 nt in size and able to deliver bulky cargos into IL-6R-presenting cells. The work described here represents one further step to potentially apply stabilized IL-6R-binding RNA aptamers in IL-6R-connected diseases, like multiple myeloma and hepatocellular carcinoma."
Additional information: Full library was not used. 2'F-modified CTP and UTP (2′-fluoro RNA (pyrimidines))
Reference (2013,RNA Biol): Meyer, C., Berg, K., Eydeler-Haeder, K., Lorenzen, I., Grötzinger, J., Rose-John, S., & Hahn, U. (2014). Stabilized Interleukin-6 receptor binding RNA aptamers. RNA biology, 11(1), 57–65. https://doi.org/10.4161/rna.27447
Aptamer: Apt1
Target: Human recombinant full-length CD44 protein
Type of nucleic acid: 2'-fluoro-RNA
Sequence: 5′GGGAUGGAUCCAAGCUUACUGGCAUCUGGAUUUGCGCGUGCCAGAAUAAAGAGUAUAACGUGUGAAUGGGAAGCUUCGAUAGGAAUUCGG3′
Sequence length: 90
GC content: 0.4777777777777778
Affinity: Kd: 81.3 ± 30.6 nM
Pool type: 5′-GGGAUGGAUCCAAGCUUACUGG-N45-GGGAAGCUUCGAUAGGAAUUCGG-3′
Pool random region: 45
Binding buffer/conditions: 4.2 mM Na2HPO4, 2 mM K2HPO4, 140 mM NaCl, 10 mM KCl, 2.5 mM MgCl2
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Modified with 2′-O-methyl group to inhibit their degradation by nucleases.
Application as quoted in the referenced paper: Therapeutic: " Cancer stem cells (CSCs) are a subset of tumor cells that has the ability to self-renew and to generate the diverse cells that comprise the tumor mass. Cell-surface glycoprotein CD44 is one of the most common surface markers used to identify CSCs. In this study, the systematic evolution of ligands by exponential enrichment (SELEX) technology was used to isolate RNA aptamers using human recombinant full-length CD44 protein. It can be concluded that the selected aptamers can be used to target CD44 positive cells, including cancer stem cells, for detection, sorting, and enrichment and for drug delivery purposes."
Additional information: 2′-F-modified; The selected aptamers were labeled with fitc
Reference (2013, Nucleic Acid Ther ): Ababneh, N., Alshaer, W., Allozi, O., Mahafzah, A., El-Khateeb, M., Hillaireau, H., Noiray, M., Fattal, E., & Ismail, S. (2013). In vitro selection of modified RNA aptamers against CD44 cancer stem cell marker. Nucleic acid therapeutics, 23(6), 401–407. https://doi.org/10.1089/nat.2013.0423
Aptamer: Apt2
Target: Human recombinant full-length CD44 protein
Type of nucleic acid: 2'-fluoro-RNA
Sequence: 5′GGGAUGGAUCCAAGCUUACUGGGGAGUAUGCGCUUGGCCGUAAUAAUGUCGAGGCUGCCCAGGUUGUGGGAAGCUUCGAUAGGAAUUCGG3′
Sequence length: 90
GC content: 0.5444444444444444
Affinity: Not reported
Pool type: 5′-GGGAUGGAUCCAAGCUUACUGG-N45-GGGAAGCUUCGAUAGGAAUUCGG-3′
Pool random region: 45
Binding buffer/conditions: 4.2 mM Na2HPO4, 2 mM K2HPO4, 140 mM NaCl, 10 mM KCl, 2.5 mM MgCl2
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Modified with 2′-O-methyl group to inhibit their degradation by nucleases.
Application as quoted in the referenced paper: Therapeutic: " Cancer stem cells (CSCs) are a subset of tumor cells that has the ability to self-renew and to generate the diverse cells that comprise the tumor mass. Cell-surface glycoprotein CD44 is one of the most common surface markers used to identify CSCs. In this study, the systematic evolution of ligands by exponential enrichment (SELEX) technology was used to isolate RNA aptamers using human recombinant full-length CD44 protein. It can be concluded that the selected aptamers can be used to target CD44 positive cells, including cancer stem cells, for detection, sorting, and enrichment and for drug delivery purposes."
Additional information: 2′-F-modified; The selected aptamers were labeled with fitc
Reference (2013, Nucleic Acid Ther ): Ababneh, N., Alshaer, W., Allozi, O., Mahafzah, A., El-Khateeb, M., Hillaireau, H., Noiray, M., Fattal, E., & Ismail, S. (2013). In vitro selection of modified RNA aptamers against CD44 cancer stem cell marker. Nucleic acid therapeutics, 23(6), 401–407. https://doi.org/10.1089/nat.2013.0423
Aptamer: Apt3
Target: Human recombinant full-length CD44 protein
Type of nucleic acid: 2'-fluoro-RNA
Sequence: 5′GGGAUGGAUCCAAGCUUACUGGGGAGUACGACUUGGCUGUGUUCUUUCGGUGCUUCUGCGUAGGCCGGGGAAGCUUCGAUAGGAAUUCGG3′
Sequence length: 90
GC content: 0.5555555555555556
Affinity: Not reported
Pool type: 5′-GGGAUGGAUCCAAGCUUACUGG-N45-GGGAAGCUUCGAUAGGAAUUCGG-3′
Pool random region: 45
Binding buffer/conditions: 4.2 mM Na2HPO4, 2 mM K2HPO4, 140 mM NaCl, 10 mM KCl, 2.5 mM MgCl2
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
Molecular weight of target: Not reported
Post-SELEX modifications: Modified with 2′-O-methyl group to inhibit their degradation by nucleases.
Application as quoted in the referenced paper: Therapeutic: " Cancer stem cells (CSCs) are a subset of tumor cells that has the ability to self-renew and to generate the diverse cells that comprise the tumor mass. Cell-surface glycoprotein CD44 is one of the most common surface markers used to identify CSCs. In this study, the systematic evolution of ligands by exponential enrichment (SELEX) technology was used to isolate RNA aptamers using human recombinant full-length CD44 protein. It can be concluded that the selected aptamers can be used to target CD44 positive cells, including cancer stem cells, for detection, sorting, and enrichment and for drug delivery purposes."
Additional information: 2′-F-modified; The selected aptamers were labeled with fitc
Reference (2013, Nucleic Acid Ther ): Ababneh, N., Alshaer, W., Allozi, O., Mahafzah, A., El-Khateeb, M., Hillaireau, H., Noiray, M., Fattal, E., & Ismail, S. (2013). In vitro selection of modified RNA aptamers against CD44 cancer stem cell marker. Nucleic acid therapeutics, 23(6), 401–407. https://doi.org/10.1089/nat.2013.0423
Aptamer: OA34
Target: Okadaic acid (OA)
Type of nucleic acid: ssDNA
Sequence: 5'GGTCACCAACAACAGGGAGCGCTACGCGAAGGGTCAATGTGACGTCATGCGGATGTGTGG3'
Sequence length: 60
GC content: 0.5833333333333334
Affinity: Kd: 77 nM
Pool type: 5′-ATACCAGCTTATTCAATT-N60-AGATAGTAAGTGCAATCT-3′
Pool random region: 60
Binding buffer/conditions: 50 mM Tris, pH 7.5, 150 mM NaCl, 2 mM MgCl2
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: Biosensor: " This work describes the selection and identification of DNA aptamers that bind with high affinity and specificity to okadaic acid (OA), a lipophilic marine biotoxin that accumulates in shellfish. The aptamers selected using systematic evolution of ligands by exponential enrichment (SELEX) exhibited dissociation constants in the nanomolar range. Further biosensing applications of the selected aptamers are expected to offer promising alternatives to the traditional analytical and immunological methods for OA detection."
Reference (2013, Anal Chem ): Eissa, S., Ng, A., Siaj, M., Tavares, A. C., & Zourob, M. (2013). Selection and identification of DNA aptamers against okadaic acid for biosensing application. Analytical chemistry, 85(24), 11794–11801. https://doi.org/10.1021/ac402220k
Aptamer: Lbi-16
Target: Listeria (L. monocytogenes)
Type of nucleic acid: ssDNA
Sequence: 5′AGTATACGTATTACCTGCAGCAAATACTTTAGATCTAAGAGTGTTTCGAAAAGACAACAGACGATATCTCGGAGATCTTGC3′
Sequence length: 81
GC content: 0.382716049382716
Affinity: Not reported
Pool type: 5′-AGTATACGTATTACCTGCAGC-N40-CGATATCTCGGAGATCTTGC-3′
Pool random region: 40
Binding buffer/conditions: 1xPBST, 0.05%Tween20 in 1xPBS
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 Detection: " The purpose of this study was to identify biotinylated single-stranded (ss) DNA aptamers with binding specificity to Listeria and use these for capture and subsequent qPCR detection of the organism. Biotinylated ssDNA aptamers are promising ligands for food-borne pathogen concentration prior to detection using molecular methods."
Reference (2013, J Biotechnol ): Suh, S. H., & Jaykus, L. A. (2013). Nucleic acid aptamers for capture and detection of Listeria spp. Journal of biotechnology, 167(4), 454–461. https://doi.org/10.1016/j.jbiotec.2013.07.027
Aptamer: Lbi-118
Target: Listeria (L. monocytogenes)
Type of nucleic acid: ssDNA
Sequence: 5′AGTATACGTATTACCTGCAGCTTGAATTAATAGATTAGTATACTTGGGAATCGTCCTAATACGATATCTCGGAGATCTTGC3′
Sequence length: 81
GC content: 0.3703703703703703
Affinity: Not reported
Pool type: 5′-AGTATACGTATTACCTGCAGC-N40-CGATATCTCGGAGATCTTGC-3′
Pool random region: 40
Binding buffer/conditions: 1xPBST, 0.05%Tween20 in 1xPBS
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 Detection: " The purpose of this study was to identify biotinylated single-stranded (ss) DNA aptamers with binding specificity to Listeria and use these for capture and subsequent qPCR detection of the organism. Biotinylated ssDNA aptamers are promising ligands for food-borne pathogen concentration prior to detection using molecular methods."
Reference (2013, J Biotechnol ): Suh, S. H., & Jaykus, L. A. (2013). Nucleic acid aptamers for capture and detection of Listeria spp. Journal of biotechnology, 167(4), 454–461. https://doi.org/10.1016/j.jbiotec.2013.07.027
Aptamer: Lbi-200
Target: Listeria (L. monocytogenes)
Type of nucleic acid: ssDNA
Sequence: 5′AGTATACGTATTACCTGCAGCAGGAAGACAAATTCCGCCAAAAAGTGGATATAACCAATAACGATATCTCGGAGATCTTGC3′
Sequence length: 81
GC content: 0.4074074074074074
Affinity: Not reported
Pool type: 5′-AGTATACGTATTACCTGCAGC-N40-CGATATCTCGGAGATCTTGC-3′
Pool random region: 40
Binding buffer/conditions: 1xPBST, 0.05%Tween20 in 1xPBS
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 Detection: " The purpose of this study was to identify biotinylated single-stranded (ss) DNA aptamers with binding specificity to Listeria and use these for capture and subsequent qPCR detection of the organism. Biotinylated ssDNA aptamers are promising ligands for food-borne pathogen concentration prior to detection using molecular methods."
Reference (2013, J Biotechnol ): Suh, S. H., & Jaykus, L. A. (2013). Nucleic acid aptamers for capture and detection of Listeria spp. Journal of biotechnology, 167(4), 454–461. https://doi.org/10.1016/j.jbiotec.2013.07.027
Aptamer: A1
Target: Ara h 1 (peanut allergen)
Type of nucleic acid: ssDNA
Sequence: 5′TCGCACATTCCGCTTCTACCGGGGGGGTCGAGCTGAGTGGATGCGAATCTGTGGGTGGGCTTCGCACACACGGACTTACG3′
Sequence length: 80
GC content: 0.6125
Affinity: Kd: 419 ± 63 nM
Pool type: 5′-TCGCACATTCCGCTTCTACC-N40-TTCGCACACACGGACTTACG-3′
Pool random region: 40
Binding buffer/conditions: Electrophoresis buffer: (A) 25 mM trizma base, 192 mM glycine, and 5 mM K2HPO4 (TGK pH 8.3) and (B) 8.1 mM Na2HPO4, 1.1 mM KH2PO4, 1 mM MgCl2, 2.7 mM KCl, 40 mM NaCl (PBS pH 7.4)
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 8.3
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " In this paper we report for the first time the selection of aptamers against one of the most important peanut allergens, Ara h 1. The selected aptamer was used for bioassay development on a home-built fiber optic surface plasmon resonance (FO-SPR) biosensor platform for detecting Ara h 1 protein in both buffer and food matrix samples demonstrating its real potential for the development of novel, more accurate aptamer-based biosensors."
Reference (2013, Biosens Bioelectron ): Tran, D. T., Knez, K., Janssen, K. P., Pollet, J., Spasic, D., & Lammertyn, J. (2013). Selection of aptamers against Ara h 1 protein for FO-SPR biosensing of peanut allergens in food matrices. Biosensors & bioelectronics, 43, 245–251. https://doi.org/10.1016/j.bios.2012.12.022
Aptamer: A2
Target: Ara h 1 (peanut allergen)
Type of nucleic acid: ssDNA
Sequence: 5′TCGCACATTCCGCTTCTACCCGGGGGGGCATCGGGTGGGATATGAGTAGATGCGTTAGGCTTCGCACACACGGACTTACG3′
Sequence length: 80
GC content: 0.5875
Affinity: Not reported
Pool type: 5′-TCGCACATTCCGCTTCTACC-N40-TTCGCACACACGGACTTACG-3′
Pool random region: 40
Binding buffer/conditions: Electrophoresis buffer: (A) 25 mM trizma base, 192 mM glycine, and 5 mM K2HPO4 (TGK pH 8.3) and (B) 8.1 mM Na2HPO4, 1.1 mM KH2PO4, 1 mM MgCl2, 2.7 mM KCl, 40 mM NaCl (PBS pH 7.4)
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 8.3
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " In this paper we report for the first time the selection of aptamers against one of the most important peanut allergens, Ara h 1. The selected aptamer was used for bioassay development on a home-built fiber optic surface plasmon resonance (FO-SPR) biosensor platform for detecting Ara h 1 protein in both buffer and food matrix samples demonstrating its real potential for the development of novel, more accurate aptamer-based biosensors."
Reference (2013, Biosens Bioelectron ): Tran, D. T., Knez, K., Janssen, K. P., Pollet, J., Spasic, D., & Lammertyn, J. (2013). Selection of aptamers against Ara h 1 protein for FO-SPR biosensing of peanut allergens in food matrices. Biosensors & bioelectronics, 43, 245–251. https://doi.org/10.1016/j.bios.2012.12.022
Aptamer: A4
Target: Ara h 1 (peanut allergen)
Type of nucleic acid: ssDNA
Sequence: 5′TCGCACATTCCGCTTCTACCGGGGGGGTGAGACATCGGGCATGTTCATGGGTGGGGGGTATTCGCACACACGGACTTACG3′
Sequence length: 80
GC content: 0.6
Affinity: Kd: 1770 ± 140 nM
Pool type: 5′-TCGCACATTCCGCTTCTACC-N40-TTCGCACACACGGACTTACG-3′
Pool random region: 40
Binding buffer/conditions: Electrophoresis buffer: (A) 25 mM trizma base, 192 mM glycine, and 5 mM K2HPO4 (TGK pH 8.3) and (B) 8.1 mM Na2HPO4, 1.1 mM KH2PO4, 1 mM MgCl2, 2.7 mM KCl, 40 mM NaCl (PBS pH 7.4)
Divalent salt: MgCl
Buffer type: PBS/phosphate buffers
pH: 8.3
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " In this paper we report for the first time the selection of aptamers against one of the most important peanut allergens, Ara h 1. The selected aptamer was used for bioassay development on a home-built fiber optic surface plasmon resonance (FO-SPR) biosensor platform for detecting Ara h 1 protein in both buffer and food matrix samples demonstrating its real potential for the development of novel, more accurate aptamer-based biosensors."
Reference (2013, Biosens Bioelectron ): Tran, D. T., Knez, K., Janssen, K. P., Pollet, J., Spasic, D., & Lammertyn, J. (2013). Selection of aptamers against Ara h 1 protein for FO-SPR biosensing of peanut allergens in food matrices. Biosensors & bioelectronics, 43, 245–251. https://doi.org/10.1016/j.bios.2012.12.022