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microarray imager combimatrix microarray imager  (CombiMatrix)

 
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    CombiMatrix microarray imager combimatrix microarray imager
    Schematic of the CLADE approach. CLADE as utilized in this study starts at the top of the schematic with an initial choice of DNA sequences. These sequences may be generated entirely in silico , or optionally, as with some of the sequences here, utilizing prior knowledge generated in vitro . These sequences are synthesized on a custom <t>microarray</t> and bound with the chosen ligand, here the APC protein. Analysis of binding intensities gives a distribution of fitnesses; the frequency distribution of Generation 1 binding to APC protein is shown by way of example. Some of these sequences are selected in silico , based on the in vitro score distribution, here using tournament selection (see Materials and methods section). These sequences are then mutated in silico to generate a new sequence set which can then be synthesised in vitro , and so on round the cycle as often as is required. The final aptamer set offers a greatly increased binding affinity to the ligand.
    Microarray Imager Combimatrix Microarray Imager, supplied by CombiMatrix, used in various techniques. Bioz Stars score: 90/100, based on 1 PubMed citations. ZERO BIAS - scores, article reviews, protocol conditions and more
    https://www.bioz.com/product/microarray+images/microarray+imager/pmc02615635-127-0-3
    Average 90 stars, based on 1 article reviews
    microarray imager combimatrix microarray imager - by Bioz Stars, 2026-09
    90/100 stars

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    1) Product Images from "Array-based evolution of DNA aptamers allows modelling of an explicit sequence-fitness landscape"

    Article Title: Array-based evolution of DNA aptamers allows modelling of an explicit sequence-fitness landscape

    Journal: Nucleic Acids Research

    doi: 10.1093/nar/gkn899

    Schematic of the CLADE approach. CLADE as utilized in this study starts at the top of the schematic with an initial choice of DNA sequences. These sequences may be generated entirely in silico , or optionally, as with some of the sequences here, utilizing prior knowledge generated in vitro . These sequences are synthesized on a custom microarray and bound with the chosen ligand, here the APC protein. Analysis of binding intensities gives a distribution of fitnesses; the frequency distribution of Generation 1 binding to APC protein is shown by way of example. Some of these sequences are selected in silico , based on the in vitro score distribution, here using tournament selection (see Materials and methods section). These sequences are then mutated in silico to generate a new sequence set which can then be synthesised in vitro , and so on round the cycle as often as is required. The final aptamer set offers a greatly increased binding affinity to the ligand.
    Figure Legend Snippet: Schematic of the CLADE approach. CLADE as utilized in this study starts at the top of the schematic with an initial choice of DNA sequences. These sequences may be generated entirely in silico , or optionally, as with some of the sequences here, utilizing prior knowledge generated in vitro . These sequences are synthesized on a custom microarray and bound with the chosen ligand, here the APC protein. Analysis of binding intensities gives a distribution of fitnesses; the frequency distribution of Generation 1 binding to APC protein is shown by way of example. Some of these sequences are selected in silico , based on the in vitro score distribution, here using tournament selection (see Materials and methods section). These sequences are then mutated in silico to generate a new sequence set which can then be synthesised in vitro , and so on round the cycle as often as is required. The final aptamer set offers a greatly increased binding affinity to the ligand.

    Techniques Used: Generated, In Silico, In Vitro, Synthesized, Microarray, Protein Binding, Binding Assay, Selection, Sequencing

    Related Articles

    Microarray:

    Article Title: Gene Expression Profiling of the Cephalothorax and Eyestalk in Penaeus Monodon during Ovarian Maturation
    Article Snippet: Microarray slides were scanned using a fluorescent microarray scanner (GenePix 4000B, MDS Analytical Technologies, Toronto, Canada). .. Microarray Imager (CombiMatrix Corporation, Mukilteo, USA) was then used to create spot intensity reports, generate gene ID mapping files and assign gene identification. ..

    Article Title: Potential mechanisms underlying embryonic developmental toxicity caused by benzo[a]pyrene in Japanese medaka (Oryzias latipes).
    Article Snippet: The medaka embryos incorporating BaP revealed typical teratogenic and developmental effects.. The gene expression analysis presented several genes and hub proteins involved in the developmental effects of BaP on medaka embryos.. Our findings suggest a potential mechanism of teratogenicity and developmental toxicity caused by exposure to BaP. a r t i c l e i n f o

    Article Title: Nanosecond pulsed electric field incorporation technique to predict molecular mechanisms of teratogenicity and developmental toxicity of estradiol-17β on medaka embryos.
    Article Snippet: Department of Creative Engineering, National Institute of Technology, Ariake College, 150 Higashi‐Hagio, Omuta, Fukuoka 836‐8585, Japan Graduate School of Agriculture, Ehime University, 3‐5‐7 Tarumi, Matsuyama 790‐8566, Japan Computer Science and Systems Engineering, Kyushu Institute of Technology, 680‐4 Kawazu, Iizuka, Fukuoka 820‐0067, Japan Mizuki Biotech, Co., Ltd., 1‐1 Hyakunenkouen, Kurume, Fukuoka 839‐0864, Japan Faculty of Environmental and Symbiotic Sciences, Prefectural University of Kumamoto, 3‐1‐100 Tsukide, Higashi‐ku, Kumamoto 862‐ 8502, Japan Correspondence Nobuaki Tominaga, 150 Higashi‐Hagio, Omuta, Fukuoka 836‐8585, Japan.. Email: tominaga@ariake‐nct.ac.jp Funding information Japan Society for the Promotion of Sciences, Japan; Grants‐in‐Aid for Scientific Research(B), Grant/Award Number: 16H02990

    Article Title: Expression analysis of ginsenoside biosynthesis-related genes in methyl jasmonate-treated adventitious roots of Panax ginseng via DNA microarray analysis
    Article Snippet: Many ginsenoside biosynthesis-related genes have been identified in Panax ginseng.. However, there is no report of the analysis of changes in gene expression induced methyl jasmonic acid (MeJA) using DNA microarray analysis.. To identify the genes related to ginsenoside biosynthesis, we harvested P. ginseng adventitious roots at 0, 24, 72 and 120 h after MeJA treatment.

    Article Title: The Sulfated Laminarin Triggers a Stress Transcriptome before Priming the SA- and ROS-Dependent Defenses during Grapevine's Induced Resistance against Plasmopara viticola
    Article Snippet: Microarrays were scanned using ScanArray 4000 XL (PerkinElmer Life Sciences, Waltham, MA, USA). .. Data extracted with Microarray Imager (Combimatrix, Irvine, CA, USA) were normalized by median scaling before deposition in NCBI GEO database (ID: GSE42972). ..

    Expressing:

    Article Title: Potential mechanisms underlying embryonic developmental toxicity caused by benzo[a]pyrene in Japanese medaka (Oryzias latipes).
    Article Snippet: The medaka embryos incorporating BaP revealed typical teratogenic and developmental effects.. The gene expression analysis presented several genes and hub proteins involved in the developmental effects of BaP on medaka embryos.. Our findings suggest a potential mechanism of teratogenicity and developmental toxicity caused by exposure to BaP. a r t i c l e i n f o

    Article Title: Nanosecond pulsed electric field incorporation technique to predict molecular mechanisms of teratogenicity and developmental toxicity of estradiol-17β on medaka embryos.
    Article Snippet: Department of Creative Engineering, National Institute of Technology, Ariake College, 150 Higashi‐Hagio, Omuta, Fukuoka 836‐8585, Japan Graduate School of Agriculture, Ehime University, 3‐5‐7 Tarumi, Matsuyama 790‐8566, Japan Computer Science and Systems Engineering, Kyushu Institute of Technology, 680‐4 Kawazu, Iizuka, Fukuoka 820‐0067, Japan Mizuki Biotech, Co., Ltd., 1‐1 Hyakunenkouen, Kurume, Fukuoka 839‐0864, Japan Faculty of Environmental and Symbiotic Sciences, Prefectural University of Kumamoto, 3‐1‐100 Tsukide, Higashi‐ku, Kumamoto 862‐ 8502, Japan Correspondence Nobuaki Tominaga, 150 Higashi‐Hagio, Omuta, Fukuoka 836‐8585, Japan.. Email: tominaga@ariake‐nct.ac.jp Funding information Japan Society for the Promotion of Sciences, Japan; Grants‐in‐Aid for Scientific Research(B), Grant/Award Number: 16H02990

    Article Title: Transcriptional response of mysid crustacean, Americamysis bahia, is affected by subchronic exposure to nonylphenol.
    Article Snippet: Nonylphenol (NP) has been classified as an endocrine-disrupting chemical.. In this study, we conducted mysid DNA microarray analysis with which has 2240 oligo DNA probes to observe differential gene expressions in mysid crustacean (Americamysis bahia) exposed to 1, 3, 10 and 30 μg/l of NP for 14 days.. As a result, we found 31, 27, 39 and 68 genes were differentially expressed in the respective concentrations.

    Software:

    Article Title: Expression analysis of ginsenoside biosynthesis-related genes in methyl jasmonate-treated adventitious roots of Panax ginseng via DNA microarray analysis
    Article Snippet: Many ginsenoside biosynthesis-related genes have been identified in Panax ginseng.. However, there is no report of the analysis of changes in gene expression induced methyl jasmonic acid (MeJA) using DNA microarray analysis.. To identify the genes related to ginsenoside biosynthesis, we harvested P. ginseng adventitious roots at 0, 24, 72 and 120 h after MeJA treatment.



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