RosettaCommons/UTexasAptamer huggingface dataset:
Aptamer: 0-25
Target: Small cell lung cancer (SCLC) cell lines (SBC3 cells)
Type of nucleic acid: ssDNA
Sequence: 5'ATACCAGCTTATTCAATTTACTCAATTACTCTCTTGTCCCTCTAGATAGTAAGTGCAATCT3'
Sequence length: 61
GC content: 0.3442622950819672
Affinity: Not reported
Pool type: 5'-ATACCAGCTTATTCAATT-N25-AGATAGTAAGTGCAATCT-3'
Pool random region: 25
Binding buffer/conditions: (0.1 mg mL−1 yeast tRNA, 1 mg mL−1 BSA, 4.5 g L−1glucose and 5 mM MgCl2 in phosphate buffered saline, pH 7.4
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: Detection: " We applied Systematic Evolution of Ligands by EXponential enrichment using Small Cell Lung Cancer (SCLC) cells. Our results showed that the DNA aptamer binds to molecules that exist predominantly on target SCLC cell surfaces compared with other types of SCLC cells."
Reference (2011, Analyst ): Kunii, T., Ogura, S., Mie, M., & Kobatake, E. (2011). Selection of DNA aptamers recognizing small cell lung cancer using living cell-SELEX. The Analyst, 136(7), 1310–1312. https://doi.org/10.1039/c0an00962h
Aptamer: A1P
Target: Vibrio parahaemolyticus (V. parahaemolyticus)
Type of nucleic acid: ssDNA
Sequence: 5'ATAGGAGTCACGACGACCAGAATAGAGATATGACAGCGGGGAAGGTTAAGAGGCGCTAGGAGTATGTGCGTCTACCTCTTGACTAAT3′
Sequence length: 87
GC content: 0.4827586206896552
Affinity: Kd: 21.45 ± 2.62 nM
Pool type: 5′-ATAGGAGTCACGACGACCAGAA-N40-TATGTGCGTCTACCTCTTGACTAAT-3′
Pool random region: 40
Binding buffer/conditions: 1× BB, 50 mM Tris-HCl (pH 7.4), 5 mM KCl, 100 mM NaCl, and 1 mM MgCl2
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: " In this study, whole-bacterium SELEX was employed to identify DNA aptamer sequences specific to V. parahemolyticus that have the potential to be further developed into a rapid isolation/identification technology to facilitate the detection of V. parahemolyticus in food and environmental samples. Whole-bacterium SELEX is [also] a promising technique for the design of aptamer-based molecular probes for microbial pathogens that does not require the labor-intensive steps of isolating and purifying complex markers or targets."
Reference (2012, J Agric Food Chem ): Duan N, Wu S, Chen X, Huang Y, Wang Z. Selection and identification of a DNA aptamer targeted to Vibrio parahemolyticus. J Agric Food Chem. 2012 Apr 25;60(16):4034-8. doi: 10.1021/jf300395z. Epub 2012 Apr 13. PMID: 22480209.
Aptamer: AraHH004
Target: Mouse tumor endothelial cells (mTEC)
Type of nucleic acid: ssDNA
Sequence: 5′CGTAGAATTCATGAGGACGTTGTTGTAGTATGGTGGTGCGGTGCAGGTGGGAATAGCTAAGCTTACCAGTGCGAT3′
Sequence length: 75
GC content: 0.4933333333333333
Affinity: Not reported
Pool type: 5′-CGTAGAATTCATGAGGACGTT-N40-AGCTAAGCTTACCAGTGCGAT-3′
Pool random region: 40
Binding buffer/conditions: 50 mM Tris-HCl (pH 7.5), 5 mM KCl, 100 mM NaCl, 1 mM MgCl2, 250 mM sucrose and 0.1% sodium azide.
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: Therapeutic and Drug Delivery: "The present study used a spontaneous cell-based SELEX method (Systemic Evolution of Ligands by EXponential Enrichment) to produce DNA aptamers that specifically bind to cell surface proteins or biomarkers produced by primary cultured mouse tumor endothelial cells (mTECs). The development of a specific DNA aptamer that binds to mTECs, as reported here for the first time, holds great promise not only as a therapeutic aptamer but also as a targeted molecular probe that appears to play a major role in angiogenesis, and for the development of a targeted new drug delivery system."
Reference (2012, PLoS One ): Ara, M. N., Hyodo, M., Ohga, N., Hida, K., & Harashima, H. (2012). Development of a novel DNA aptamer ligand targeting to primary cultured tumor endothelial cells by a cell-based SELEX method. PloS one, 7(12), e50174. https://doi.org/10.1371/journal.pone.0050174
Aptamer: AraHH008
Target: Mouse tumor endothelial cells (mTEC)
Type of nucleic acid: ssDNA
Sequence: 5′CGTAGAATTCATGAGGACGTTGTGTATGTGGCTATAGTACGCGATGTTCGTAGCTAAGCTTACCAGTGCGAT3′
Sequence length: 72
GC content: 0.4583333333333333
Affinity: Not reported
Pool type: 5′-CGTAGAATTCATGAGGACGTT-N40-AGCTAAGCTTACCAGTGCGAT-3′
Pool random region: 40
Binding buffer/conditions: 50 mM Tris-HCl (pH 7.5), 5 mM KCl, 100 mM NaCl, 1 mM MgCl2, 250 mM sucrose and 0.1% sodium azide.
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: Therapeutic and Drug Delivery: "The present study used a spontaneous cell-based SELEX method (Systemic Evolution of Ligands by EXponential Enrichment) to produce DNA aptamers that specifically bind to cell surface proteins or biomarkers produced by primary cultured mouse tumor endothelial cells (mTECs). The development of a specific DNA aptamer that binds to mTECs, as reported here for the first time, holds great promise not only as a therapeutic aptamer but also as a targeted molecular probe that appears to play a major role in angiogenesis, and for the development of a targeted new drug delivery system."
Reference (2012, PLoS One ): Ara, M. N., Hyodo, M., Ohga, N., Hida, K., & Harashima, H. (2012). Development of a novel DNA aptamer ligand targeting to primary cultured tumor endothelial cells by a cell-based SELEX method. PloS one, 7(12), e50174. https://doi.org/10.1371/journal.pone.0050174
Aptamer: AraHH022
Target: Mouse tumor endothelial cells (mTEC)
Type of nucleic acid: ssDNA
Sequence: 5′CGTAGAATTCATGAGGACGTTGTGTTACGTGACCGAGACGGTTAGTTCTATGGTCAAGGAGCTAAGCTTACCAGTGCGAT3′
Sequence length: 80
GC content: 0.475
Affinity: Not reported
Pool type: 5′-CGTAGAATTCATGAGGACGTT-N40-AGCTAAGCTTACCAGTGCGAT-3′
Pool random region: 40
Binding buffer/conditions: 50 mM Tris-HCl (pH 7.5), 5 mM KCl, 100 mM NaCl, 1 mM MgCl2, 250 mM sucrose and 0.1% sodium azide.
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: Therapeutic and Drug Delivery: "The present study used a spontaneous cell-based SELEX method (Systemic Evolution of Ligands by EXponential Enrichment) to produce DNA aptamers that specifically bind to cell surface proteins or biomarkers produced by primary cultured mouse tumor endothelial cells (mTECs). The development of a specific DNA aptamer that binds to mTECs, as reported here for the first time, holds great promise not only as a therapeutic aptamer but also as a targeted molecular probe that appears to play a major role in angiogenesis, and for the development of a targeted new drug delivery system."
Reference (2012, PLoS One ): Ara, M. N., Hyodo, M., Ohga, N., Hida, K., & Harashima, H. (2012). Development of a novel DNA aptamer ligand targeting to primary cultured tumor endothelial cells by a cell-based SELEX method. PloS one, 7(12), e50174. https://doi.org/10.1371/journal.pone.0050174
Aptamer: HA68
Target: Recombinant HA protein from swine IAV H3 cluster IV
Type of nucleic acid: ssDNA
Sequence: 5'GTGCAGTCAAAGACGTCCACTCCGTCATCTTTAGTGGCCCCAATGTCGTTATCACCGAGGCAATCGCACTTCATGGTC3'
Sequence length: 78
GC content: 0.5256410256410257
Affinity: Kd: 7.1 nM
Pool type: 5'-GTGCAGTCAAAGACGTCC-N40-GGCAATCGCACTTCATGGTC-'3
Pool random region: 40
Binding buffer/conditions: 500 μl of 50 mM NaH2PO4, 300 mM NaCl, and 20 mM imidazole (pH 8.0)
Buffer type: PBS/phosphate buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection: " Triple reassortant influenza A viruses (IAVs) of swine, particularly the North American H3N2 subtype, circulate in swine herds and may reassort and result in the emergence of novel zoonotic strains. Aptamer HA68 was also able to bind and detect H3N2v isolated from recent human cases. We provide subtype-specific aptamers against H3N2 IAVs of swine that can now be used in rapid detection and typing protocols for field applications."
Additional information: Selected aptamer sequences were synthesized and labeled with biotin (5′), while amplicons containing enriched aptamer pool were amplified by pcr with 5′-biotin-labeled forward primer (bio-wp18: biotingtgcagtcaaagacgtcc)
Reference (2012, J Clin Microbiol ): Wongphatcharachai, M., Wang, P., Enomoto, S., Webby, R. J., Gramer, M. R., Amonsin, A., & Sreevatsan, S. (2013). Neutralizing DNA aptamers against swine influenza H3N2 viruses. Journal of clinical microbiology, 51(1), 46–54. https://doi.org/10.1128/JCM.02118-12
Aptamer: Lep1
Target: Leptin protein, Human
Type of nucleic acid: ssDNA
Sequence: 5′CTTCTGCCCGCCTCCTTCCTGTCACAATTTCCCCCCTCGCACATTTTGCAAGTAACTGAGGAGACGAGATAGGCGGACACT3′
Sequence length: 81
GC content: 0.5432098765432098
Affinity: Kd: 0.87 ± 0.07 μM via NECEEM, Kd: 1.90 ± 0.53 μM via Fluorescence intensity
Pool type: 5′-CTTCTGCCCGCCTCCTTCC-N40-GGAGACGAGATAGGCGGACACT-3′
Pool random region: 40
Binding buffer/conditions: (1× TGK) 25 mM Tris, 192 mM glycine, and 5 mM potassium phosphate (pH 8.3)
Buffer type: Tris Buffers
pH: 8.3
Molecular weight of target: 16 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " In this article, we demonstrate the use of CE–SELEX to select aptamer sequences with high nanomolar binding affinities in free solution against human leptin protein. An aptamer developed against human leptin will have applications in investigating leptin’s role as an inflammatory marker and as a therapeutic affinity probe."
Additional information: 5'-FAM: Fuorescent label modified primers (IDT)
Reference (2012, Anal Biochem ): Ashley J, Li SF. Three-dimensional selection of leptin aptamers using capillary electrophoresis and implications for clone validation. Anal Biochem. 2013;434(1):146-152. doi:10.1016/j.ab.2012.11.024
Aptamer: Lep2
Target: Leptin protein, Human
Type of nucleic acid: ssDNA
Sequence: 5′CTTCTGCCCGCCTCCTTCCTGGGTGGCCTCCCGTTTATTCGAGATTTGGTTGAATTTGTGGAGACGAGATAGGCGGACACT3′
Sequence length: 81
GC content: 0.5432098765432098
Affinity: Kd: 0.41 ± 0.13 μM via NECEEM, Kd: 1.18 ± 0.39 μM via Fluorescence intensity
Pool type: 5′-CTTCTGCCCGCCTCCTTCC-N40-GGAGACGAGATAGGCGGACACT-3′
Pool random region: 40
Binding buffer/conditions: (1× TGK) 25 mM Tris, 192 mM glycine, and 5 mM potassium phosphate (pH 8.3)
Buffer type: Tris Buffers
pH: 8.3
Molecular weight of target: 16 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " In this article, we demonstrate the use of CE–SELEX to select aptamer sequences with high nanomolar binding affinities in free solution against human leptin protein. An aptamer developed against human leptin will have applications in investigating leptin’s role as an inflammatory marker and as a therapeutic affinity probe."
Additional information: 5'-FAM: Fuorescent label modified primers (IDT)
Reference (2012, Anal Biochem ): Ashley J, Li SF. Three-dimensional selection of leptin aptamers using capillary electrophoresis and implications for clone validation. Anal Biochem. 2013;434(1):146-152. doi:10.1016/j.ab.2012.11.024
Aptamer: Lep4
Target: Leptin protein, Human
Type of nucleic acid: ssDNA
Sequence: 5′CTTCTGCCCGCCTCCTTCCTCTATAAACTCTGTCCGGTTTTATAATAATAACATTTTACGGAGACGAGATAGGCGGACACT3′
Sequence length: 81
GC content: 0.4444444444444444
Affinity: Kd: 1.47 ± 0.14 μM via NECEEM, Kd: 3.00 ± 0.80 μM via Fluorescence intensity
Pool type: 5′-CTTCTGCCCGCCTCCTTCC-N40-GGAGACGAGATAGGCGGACACT-3′
Pool random region: 40
Binding buffer/conditions: (1× TGK) 25 mM Tris, 192 mM glycine, and 5 mM potassium phosphate (pH 8.3)
Buffer type: Tris Buffers
pH: 8.3
Molecular weight of target: 16 kDa
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Therapeutic: " In this article, we demonstrate the use of CE–SELEX to select aptamer sequences with high nanomolar binding affinities in free solution against human leptin protein. An aptamer developed against human leptin will have applications in investigating leptin’s role as an inflammatory marker and as a therapeutic affinity probe."
Additional information: 5'-FAM: Fuorescent label modified primers (IDT)
Reference (2012, Anal Biochem ): Ashley J, Li SF. Three-dimensional selection of leptin aptamers using capillary electrophoresis and implications for clone validation. Anal Biochem. 2013;434(1):146-152. doi:10.1016/j.ab.2012.11.024
Aptamer: D3
Target: Digoxin
Type of nucleic acid: ssDNA
Sequence: 5′ATACCAGCTTATTCAATTTACTGGGCTGGGCTTGGATTAGATCACAGTGGAACATACAGGACACACGAGATAGTAAGTGCAATCT3′
Sequence length: 85
GC content: 0.4235294117647059
Affinity: Not reported
Pool type: 5′-ATACCAGCTTATTCAATT-N50-AGATAGTAAGTGCAATCT-3′
Pool random region: 50
Binding buffer/conditions: 100 mM NaCl, 20 mM Tris–HCl (pH 7.6), 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2 and 0.02% Tween 20
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.6
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: "Since aptamers have been shown to be highly specific for their targets, the aim of this study was to develop DNA aptamers for this widely used cardiac glycoside. Our finding indicated that D1 anti-digoxin aptamer can selectively bind to digoxin. Further studies might show its suitability for use in digoxin assays and as a therapeutic agent in life-threatening digoxin toxicity."
Additional information: The following forward and reverse primers were used for amplification and cloning using forward primer: 5′-ATACCAGCTTATTCAATT-3′, reverse primer: 5′-AGATTGCACTTACTATCT-3′, fluorescein-labeled forward primer: 5′-fluorescein-ATACCAGCTTATTCAATT-3′ and modified reverse primer: 5′-poly-dA20-hexaethylene glycol (HEGL)-AGATTGCACTTACTATCT-3′.
Reference (2012, Anal Chim Acta ): Kiani Z, Shafiei M, Rahimi-Moghaddam P, Karkhane AA, Ebrahimi SA. In vitro selection and characterization of deoxyribonucleic acid aptamers for digoxin. Anal Chim Acta. 2012;748:67-72. doi:10.1016/j.aca.2012.08.025
Aptamer: Truncated D2
Target: Digoxin
Type of nucleic acid: ssDNA
Sequence: 5′GGTGGCTGTTGGTCGAGGCTTATTAGTGTAGTCAATGGAGGCAGGCGACG3′
Sequence length: 50
GC content: 0.56
Affinity: Kd: 44.0 nM
Pool type: 5′-ATACCAGCTTATTCAATT-N50-AGATAGTAAGTGCAATCT-3′
Pool random region: 50
Binding buffer/conditions: 100 mM NaCl, 20 mM Tris–HCl (pH 7.6), 2 mM MgCl2, 5 mM KCl, 1 mM CaCl2 and 0.02% Tween 20
Divalent salt: MgCl/CaCl
Buffer type: Tris Buffers
pH: 7.6
Molecular weight of target: Not reported
Post-SELEX modifications: Not applicable
Application as quoted in the referenced paper: Detection and Therapeutic: "Since aptamers have been shown to be highly specific for their targets, the aim of this study was to develop DNA aptamers for this widely used cardiac glycoside. Our finding indicated that D1 anti-digoxin aptamer can selectively bind to digoxin. Further studies might show its suitability for use in digoxin assays and as a therapeutic agent in life-threatening digoxin toxicity."
Additional information: The following forward and reverse primers were used for amplification and cloning using forward primer: 5′-ATACCAGCTTATTCAATT-3′, reverse primer: 5′-AGATTGCACTTACTATCT-3′, fluorescein-labeled forward primer: 5′-fluorescein-ATACCAGCTTATTCAATT-3′ and modified reverse primer: 5′-poly-dA20-hexaethylene glycol (HEGL)-AGATTGCACTTACTATCT-3′.
Reference (2012, Anal Chim Acta ): Kiani Z, Shafiei M, Rahimi-Moghaddam P, Karkhane AA, Ebrahimi SA. In vitro selection and characterization of deoxyribonucleic acid aptamers for digoxin. Anal Chim Acta. 2012;748:67-72. doi:10.1016/j.aca.2012.08.025
Aptamer: AMP18
Target: Ampicillin
Type of nucleic acid: ssDNA
Sequence: 5'TTTAGTTGGGGTTCAGTTG3'
Sequence length: 19
GC content: 0.4210526315789473
Affinity: Kd: 9.8 nM
Pool type: 5′-CACCTAATACGACTCACTATAGCGGATCCGA-N40-CTGGCTCGAACAAGCTTGC-3′
Pool random region: 40
Binding buffer/conditions: 20 mM Tris–HCl, 50 mM NaCl, 5 mM KCl, 5 mM MgCl2, pH 8.0
Divalent salt: MgCl
Buffer type: Tris Buffers
pH: 8
Molecular weight of target: Not reported
Post-SELEX modifications: Truncated: The ssDNA was shortened based on the common sequence
Application as quoted in the referenced paper: Detection: " A gold nanoparticle based dual fluorescence-colorimetric method was developed as an aptasensor to detect ampicillin using its single-stranded DNA (ssDNA) aptamer, which was discovered by a magnetic bead-based SELEX technique. Because these detection limits were below the maximum residue limit of ampicillin, this aptasensor was sensitive enough to detect antibiotics in food products, such as milk and animal tissues."
Additional information: Fam conjugated to 5' end of aptamer. The paper reported two common sequences for the AMP18, the manuscript version of sequence is: AMP18 (21-mer 5′-TTAGTTGGGGTTCAGTTGG-3′) 
Reference (2012, Anal Bioanal Chem ): Song KM, Jeong E, Jeon W, Cho M, Ban C. Aptasensor for ampicillin using gold nanoparticle based dual fluorescence-colorimetric methods. Anal Bioanal Chem. 2012;402(6):2153-2161. doi:10.1007/s00216-011-5662-3
Aptamer: Aptamer 13
Target: Human papillomavirus (HPV)-transformed HeLa cervical carcinoma cells
Type of nucleic acid: ssDNA
Sequence: 5′ATACCAGCTTATTCAATTGGGCACAGACGGAAGATGAGAATTGTGGGGCTTAGTATAGTGAGGTGCGTGTAGATAGTAAGTGCAATCT3′
Sequence length: 88
GC content: 0.4318181818181818
Affinity: Kd: 2.5±0.5 nM
Pool type: 5′-ATACCAGCTTATTCAATT-N52-AGATAGTAAGTGCAATCT-3′
Pool random region: 52
Binding buffer/conditions: 1% BSA in PBS with salts
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: Dectection: " Using AC-SELEX we have generated several aptamers that have high affinity and specificity to the nontumorigenic, revertant of HPV-transformed cervical cancer cells. These aptamers can be used to identify new biomarkers that are related to carcinogenesis. Panels of aptamers, such as these may be useful in predicting the tumorigenic potential and properties of cancer biopsies and aid in the effective management of pathological conditions (diagnosis, predicted outcome, and treatment options)."
Reference (2012, PLoS One ): Graham, J. C., & Zarbl, H. (2012). Use of cell-SELEX to generate DNA aptamers as molecular probes of HPV-associated cervical cancer cells. PloS one, 7(4), e36103. https://doi.org/10.1371/journal.pone.0036103
Aptamer: Aptamer 20
Target: Human papillomavirus (HPV)-transformed HeLa cervical carcinoma cells
Type of nucleic acid: ssDNA
Sequence: 5′ATACCAGCTTATTCAATTGGGGAGGGAGACACAGTCATGGAGCAGTTATTAGGGTGTACCGGGTGTAGTAGATAGTAAGTGCAATCT3′
Sequence length: 87
GC content: 0.4482758620689655
Affinity: Kd: 1.6±0.4 nM
Pool type: 5′-ATACCAGCTTATTCAATT-N52-AGATAGTAAGTGCAATCT-3′
Pool random region: 52
Binding buffer/conditions: 1% BSA in PBS with salts
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: Dectection: " Using AC-SELEX we have generated several aptamers that have high affinity and specificity to the nontumorigenic, revertant of HPV-transformed cervical cancer cells. These aptamers can be used to identify new biomarkers that are related to carcinogenesis. Panels of aptamers, such as these may be useful in predicting the tumorigenic potential and properties of cancer biopsies and aid in the effective management of pathological conditions (diagnosis, predicted outcome, and treatment options)."
Reference (2012, PLoS One ): Graham, J. C., & Zarbl, H. (2012). Use of cell-SELEX to generate DNA aptamers as molecular probes of HPV-associated cervical cancer cells. PloS one, 7(4), e36103. https://doi.org/10.1371/journal.pone.0036103
Aptamer: C4
Target: Salmonella Typhimurium
Type of nucleic acid: ssDNA
Sequence: 5′CGGATGCGAATTCCCTAATACGACTCACTATAGGGCGTACGGGCGTGGGGGCAATGCCTGCTTGTAGGCTTCCCCTGTGCGCGGGTGGATCCATATTCCTACTCG3′
Sequence length: 105
GC content: 0.580952380952381
Affinity: Not reported
Pool type: 5′-CGGATGCGAATTCCCTAATACGACTCACTATAGGGCGT-N40-GGTGGATCCATATTCCTACTCG-3′
Pool random region: 40
Binding buffer/conditions: 50 μl PBS (pH 7.4, Sigma, MO, USA)
Buffer type: PBS/phosphate buffers
pH: 7.4
Molecular weight of target: Not reported
Post-SELEX modifications: Not appilcable
Application as quoted in the referenced paper: Detection: " In this study, aptamer against S. Typhimurium was selected through the whole-cell SELEX technique. Whole-cell SELEX is considered to be a useful aptamer selection tool, as aptamers derived in this way can target whole live bacteria. Our modified strategy has improved the development of aptamers against bacteria. Furthermore, aptamer C4 could be a potential ligand for capturing S. Typhimurium, and be useful in development of easy, rapid, and sensitive methodology for pathogen detection."
Additional information: The selected DNA was fluorescently labeled via PCR amplification with 5′-FAM (fluorescein)- and 3′-FAM-modified primers
Reference (2013, J Microbiol Methods ): Moon, J., Kim, G., Lee, S., & Park, S. (2013). Identification of Salmonella Typhimurium-specific DNA aptamers developed using whole-cell SELEX and FACS analysis. Journal of microbiological methods, 95(2), 162–166. https://doi.org/10.1016/j.mimet.2013.08.005
Aptamer: N55
Target: Inflamed endothelial cells
Type of nucleic acid: ssDNA
Sequence: 5′AGATTGCACTTACTATCTATACCAGCTTATTCAATTCCCAAATTGCCACCACTTACAGCATGATAACATACTACATCTTTTCATCAAGATAGTAAGTGCAATCTAATTGAATAAGCTGGTAT3′
Sequence length: 122
GC content: 0.3360655737704918
Affinity: Kd: 460.12 (±101.99) nM
Pool type: 5′-AGATTGCACTTACTATCT-N50-AATTGAATAAGCTGGTAT-3′
Pool random region: 50
Binding buffer/conditions: SELEX binding buffer (the binding buffer contained 0.1 % bovine serum albumin (BSA) (Sigma-Aldrich) and 0.1 g/L yeast tRNA (Invitrogen) in the washing buffer) 
Washing buffer ( 5 mmol/L MgCl2 (Sigma-Aldrich) and 4.5 g/L glucose (Sigma-Aldrich) in Dulbecco PBS (Invitrogen))
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: " We report a promising aptamer, N55, selected by SRC-SELEX, which can bind specifically to inflamed endothelial cells both in cell culture and atherosclerotic plaque tissue. This aptamer probe was demonstrated as a potential molecular probe for magnetic resonance imaging to target inflamed endothelial cells and atherosclerotic plaque detection."
Additional information: Utilized modified SELEX methodology called SRC-SELEX, which enables the selection of aptamers to distinguish the cells activated by stimulus of healthy cells or cells isolated from diseased tissue.
Reference (2013, Anal Bioanal Chem ): Ji, K., Lim, W. S., Li, S. F., & Bhakoo, K. (2013). A two-step stimulus-response cell-SELEX method to generate a DNA aptamer to recognize inflamed human aortic endothelial cells as a potential in vivo molecular probe for atherosclerosis plaque detection. Analytical and bioanalytical chemistry, 405(21), 6853–6861. https://doi.org/10.1007/s00216-013-7155-z