AptaDB: Result

Interaction ID: 1071

Aptamer sequence: GTACTGTCAATTGGAAGTGGTGTTACGTTGTGTAGTCAAATCAGTGC

Target unique ID: HB-8065

Aptamer ID	Aptamer descriptor	Target chemistry	Target name	Affinity	Binding Conditions/Buffer	PubMed ID
Apta_987	Apt-07S	Cell	HCC cell (HepG2/MDR)	194.7 nM	1×PBS-1 mM MgCl2-0.1 μg/μL ytRNA-0.1 μg/μL wDNA-X pmol ssDNA library	32368012

Aptamer Sequence:	GTACTGTCAATTGGAAGTGGTGTTACGTTGTGTAGTCAAATCAGTGC
The optimal secondary structure in dot-bracket notation:	((((((....((((........((((.....))))))))..))))))
The centroid secondary structure in dot-bracket notation:	((((((.................(((.....))).......))))))

The MFE structure

The Centroid structure

The mountain plot representation

Type	Detail	Type	Detail
Aptamer ID	Apta_987	Description	Apt-07S
Aptamer chemistry	DNA	Length	47 nt
GC content	42.6%	Molecular weight	14,594.38 Da
Molarity of 1 μg/μl solution	68.52 μM	Number of G-quadruplexes	No QGRS found
G-Score	N/A	Function	Targeted binding
Sequence	GTACTGTCAATTGGAAGTGGTGTTACGTTGTGTAGTCAAATCAGTGC
Applications	Apt-07S can specififically target HCC

Type	Detail	Type	Detail
ATCC ID	HB-8065	Cell name	HCC cell (HepG2/MDR)
Category	Human cells	Organism	Homo sapiens, human
Product type	N/A	Cell type	N/A
Morphology	epithelial-like	Tissue	Liver
Disease	Carcinoma; Hepatocellular	Product format	Frozen
Antigen expression	N/A	Genes expressed	Alpha-fetoprotein (AFP, alpha fetoprotein); albumin; alpha2 macroglobulin (alpha-2-macroglobulin)
Cell description	Hep G2 [HEPG2] is a cell line exhibiting epithelial-like morphology that was isolated from a hepatocellular carcinoma of a 15-year-old, White, male youth with liver cancer. The cell line was deposited by the Wistar Institute and is a suitable transfection host. Expression markers include insulin; insulin-like growth factor II (IGF II).
Application(s)	3D cell culture; Cancer research; High-throughput screening; Toxicology

	Interaction ID	1071
	Target type	Cell
	Target unique ID	HB-8065
	Activity	194.7 nM
	Binding Conditions/Buffer	1×PBS-1 mM MgCl2-0.1 μg/μL ytRNA-0.1 μg/μL wDNA-X pmol ssDNA library
	Assay	Binding curves of aptamer Apt-07S to two target hepatocellular carcinoma cells, HepG2 and SMMC-7721
	PubMed ID	32368012
	Interaction ID	1072
	Target type	Other
	Target unique ID	Other-43
	Activity	224.2 nM
	Binding Conditions/Buffer	1×PBS-1 mM MgCl2-0.1 μg/μL ytRNA-0.1 μg/μL wDNA-X pmol ssDNA library
	Assay	Binding curves of aptamer Apt-07S to two target hepatocellular carcinoma cells, HepG2 and SMMC-7721
	PubMed ID	32368012

Aptamer ID	Aptamer chemistry	Sequence	Similarity
Apta_846	DNA	GTGCAGACAGCTAGTAGTGGTGACTTTCTGTCCAAATCAAGATAA	61.70%
Apta_1216	DNA	AGCGTCCTCTGCATAGTGATTTACGCTATGTGTACAGTGC	61.70%
Apta_928	DNA	GATTGAGTAGATAGTGGTTCTGTACGTAGTGAAAGAGTGG	59.57%
Apta_47	DNA	GACCTAGCAGTGGACATGTGGCAGGGTGAAGTGGCATCGTC	57.45%
Apta_58	DNA	GCACCTTGATGACATGATAGTCGTTGTGTATGCAGTTGGC	57.45%
Apta_285	DNA	GCCACTCCGTCACTTTAGTGGTTTTTTTTATAAATGCTTC	57.45%
Apta_407	DNA	GTGAATTGCGTTGAATTATGTTTTTTCAGTCATCACT	57.45%
Apta_781	DNA	GTACGCCGCAAGACGAGTTGTGTATAAGCCGGC	57.45%
Apta_882	DNA	AATAGTCTGGTTCGGTGCTTGGTGCGATGTGTTAGTCAGACTCTTGTGTG	56.00%
Apta_1274	DNA	GACTTCGTCGTCTTTAGACTAGCAGTTAGGGTTTACGATTGTGGAGTTAGCCCCCAGGG	55.93%
Apta_260	DNA	GACGTTAAGCTAGCAGGTGTTAGGTCCCGTGGTGATGAAT	55.32%
Apta_929	DNA	GAGTGGGATGGATAGAGAATAAGTGTGGAGTGGAAGGTGA	55.32%
Apta_1022	DNA	CTCCTTCAACGAAGTGGGTTCCTTCAACGAAGTGGGTCTC	55.32%
Apta_1176	DNA	AGTATGATATCGGTGTTTATGGTGTCTGTCTTCATACT	55.32%
Apta_1236	DNA	GGACTGTTGTGGTATTATTTTTGGTTGTGC	55.32%
Apta_1241	DNA	GGTGTGGAGTGGTGTGTGTTGTTGTTTGTC	55.32%
Apta_1245	DNA	AGTGTGAAGTGGTGTGTGTTGTTGTTTGTC	55.32%
Apta_1255	DNA	GGCGCATGATCATTCGGTGGGTAAGGTGGTGGTAACGTTG	55.32%
Apta_1286	DNA	CTATACGTATTCTAACTTGTTACGTATTGGTCTCTTATTG	55.32%
Apta_884	DNA	ATACCAGCTTATTCAATTTGCACCACTTATTGTTACTAATCTGAGATAGTAAGTGCAATCT	54.10%

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