Rational principles of compound selection for combinatorial library design.

Abstract:

:It is practically impossible in a short period of time to synthesize and test all compounds in any large exhaustive chemical library. We discuss rational approaches to selecting representative subsets of virtual libraries that help direct experimental synthetic efforts for both targeted and diverse library design. For targeted library design, we consider principles based on the similarity to lead molecules. In the case of diverse library design, we discuss algorithms aimed at the selection of both diverse and representative subsets of the entire chemical library space. We illustrate methodologies with several practical examples.

authors

Tropsha A,Zheng W

doi

10.2174/1386207024607400

subject

Has Abstract

pub_date

2002-03-01 00:00:00

pages

111-23

issue

2

eissn

1386-2073

issn

1875-5402

journal_volume

5

pub_type

杂志文章
  • A high throughput scintillation proximity imaging assay for protein methyltransferases.

    abstract::Protein methyltransferases (PMTs) orchestrate epigenetic modifications through post-translational methylation of various protein substrates including histones. Since dysregulation of this process is widely implicated in many cancers, it is of pertinent interest to screen inhibitors of PMTs, as they offer novel target-...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/138620712800194468

    authors: Ibanez G,Shum D,Blum G,Bhinder B,Radu C,Antczak C,Luo M,Djaballah H

    更新日期:2012-06-01 00:00:00

  • Synthesis of unsaturated α-acyloxybenzothiazoleamides via the Passerini three-component reaction.

    abstract::4-Benzothiazol-2-ylamino-4-oxo-2-butenoic acid, prepared from reaction of 2-aminobenzothiazole and maleic anhydride, are used as an acid component in Passerini three-component reaction, under solvent-free media, to produce unsaturated α-benzothiazole acyloxyamides in good yields. ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/13862073113169990041

    authors: Sheikholeslami-Farahani F,Shahvelayati AS

    更新日期:2013-11-01 00:00:00

  • Prerequisites for peptidomic analysis of blood samples: II. Analysis of human plasma after oral glucose challenge -- a proof of concept.

    abstract::Mass spectrometric plasma analysis for biomarker discovery has become an exploratory focus in proteomic research: the challenges of analyzing plasma samples by mass spectrometry have become apparent not only since the human proteome organization (HUPO) has put much emphasis on the human plasma proteome. This work demo...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/138620705774962427

    authors: Tammen H,Hess R,Schulte I,Kellmann M,Appel A,Budde P,Zucht HD,Schulz-Knappe P

    更新日期:2005-12-01 00:00:00

  • In silico screening of antifolate based novel inhibitors from Brucea mollis Wall. ex kurz against quadruple mutant drug resistant PfDHFR.

    abstract::Plasmodium falciparum is the most lethal form of the genus Plasmodium which causes malaria, a 'disease of antiquity'. Globally it affects the health and socio-economic development of a large population especially in Sub-Saharan Africa and Southeast Asia. The Plasmodium falciparum dihydrofolate reductase-thymidylate sy...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207317666140521153305

    authors: Borkakoty B,Sarma K,Parida P,Prakash A,Mohapatra PK,Mahanta J

    更新日期:2014-01-01 00:00:00

  • Pharmacological characterization of ligands at recombinant NMDA receptor subtypes by electrophysiological recordings and intracellular calcium measurements.

    abstract::Generation of in vitro cellular assays using fluorescence measurements at heterologously expressed NMDA receptors would speed up the process of ligand characterization and enable high-throughput screening. The major drawback to the development of such assays is the cytotoxicity caused by Ca(2+)-flux into the cell via ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/138620708784246040

    authors: Hansen KB,Bräuner-Osborne H,Egebjerg J

    更新日期:2008-05-01 00:00:00

  • Time-resolved fluorescence measurements using microlens array and area imaging devices.

    abstract::Time-resolved fluorescence (TRF) assay formats are frequently used technologies in high-throughput screening. In this article, we have characterised the novel Plate::Vision(2) 96-microlens array reader (Carl Zeiss Jena GmbH, Germany) and compared it to the novel LEADseeker Generation IV multimodality imaging system (L...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/138620704772884814

    authors: Merk S,Lietz A,Kroner M,Valler M,Heilker R

    更新日期:2004-02-01 00:00:00

  • Systematic evaluation of the mechanisms of Mulberry leaf (Morus alba Linne) acting on diabetes based on network pharmacology and molecular docking.

    abstract:BACKGROUND:Diabetes mellitus is one of the most common endocrine metabolic disorder diseases. The application of herbal medicine to control glucose levels and improve insulin action might be a useful approach in the treatment of diabetes. Mulberry leaves (ML) has been reported to exert important activities of anti-diab...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207323666200914103719

    authors: Wu Q,Hu Y

    更新日期:2020-09-13 00:00:00

  • High-throughput selection system for assessing the activity of epoxide hydrolases.

    abstract::Crucial to the success of directed evolution of enantioselective enzymes for use as catalysts in synthetic organic chemistry is the availability of high-throughput assays for determining the enantiopurity of thousands of samples. Although several such ee-assays are available, they entail time and effort, which means t...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/138620706776843156

    authors: Reetz MT,Wang LW

    更新日期:2006-05-01 00:00:00

  • Shotgun phage display cloning.

    abstract::Shotgun phage display cloning is a useful tool for studying interactions between bacterial and host proteins. Libraries are constructed by cloning randomly fragmented prokaryotic DNA into phage mid-vectors. Theoretically, these libraries will consist of phages that together display all proteins encoded by the bacteria...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/1386207013331255

    authors: Jacobsson K,Frykberg L

    更新日期:2001-04-01 00:00:00

  • Bioactivity-Guided Isolation of Antiproliferative Sesquiterpene Lactones from Centaurea solstitialis L. ssp. solstitialis.

    abstract::Centaurea solstitialis L. ssp. solstitialis (CSS) has been used as medicine for various diseases. In this work, root, stem and flower parts of the plant were separately extracted with methanol to execute bioassay-guided isolation. Antiproliferative activities of each extracts on C6 cells (Rat Brain tumor cells) and He...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207319666151203002117

    authors: Erenler R,Sen O,Yaglioglu AS,Demirtas I

    更新日期:2016-01-01 00:00:00

  • Fluorescent Formazans and Tetrazolium Salts - Towards Fluorescent Cytotoxicity Assays.

    abstract::Formazan-based colorimetric cytotoxicity assays, such as the MTT assay, are typically used to assess cell viability with only metabolically active cells reducing tetrazolium salts into the formazans, which is then quantified by absorbance. Fluorescence offers several advantages compared to colorimetric assays and woul...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207319666160408150913

    authors: Ladyman MK,Walton JG,Lilienkampf A,Bradley M

    更新日期:2016-01-01 00:00:00

  • Instrumental considerations in high content screening.

    abstract::Widely diverse biological queries are now routinely analyzed on the various optical platforms: laser line scanners, nonconfocal imagers and confocal imagers. These analyses may be performed to query a limited number of samples or range to include the evaluation of a million samples as is the goal of many screening dep...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/138620709789383231

    authors: Shumate C,Hoffman AF

    更新日期:2009-11-01 00:00:00

  • Artificial Neural Network Methods Applied to Drug Discovery for Neglected Diseases.

    abstract::Among the chemometric tools used in rational drug design, we find artificial neural network methods (ANNs), a statistical learning algorithm similar to the human brain, to be quite powerful. Some ANN applications use biological and molecular data of the training series that are inserted to ensure the machine learning,...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/1386207318666150803141219

    authors: Scotti L,Ishiki H,Mendonça Júnior FJ,da Silva MS,Scotti MT

    更新日期:2015-01-01 00:00:00

  • Efficient One-Pot Synthesis of Thiazol-2-imine Derivatives through Regioselective Reaction Between Primary Amines, Phenylisothiocyanate, and α-Chloroacetaldehyde.

    abstract:AIM AND OBJECTIVE:Thiazol-2-imine derivatives are interested for their pharmaceutical and biologic activities. A literature survey reveals that there have been no any reports on the synthesis of thiazol-2-imine derivatives without substituents in position C-4 and C-5 via one-pot reaction. Herein we report an efficient ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1568009617666161107093942

    authors: Nasiri F,Sabahi-Agabager L

    更新日期:2017-01-01 00:00:00

  • Utility of NMR in lead optimization: fragment-based approaches.

    abstract::NMR has proven to be a valuable tool for identifying small molecule drug leads that serve as starting points for lead optimization programs. In addition, NMR screening can also be applied during lead optimization in order to improve the pharmacokinetic properties of a compound. In this paper we review the NMR methods ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/1386207023329941

    authors: Huth JR,Sun C

    更新日期:2002-12-01 00:00:00

  • Selective molecularly imprinted polymer obtained from a combinatorial library for the extraction of bisphenol A.

    abstract::In the present work, an analytical methodology based on molecularly imprinted solid-phase extraction (MISPE) has been developed for the determination of bisphenol A (BPA) in environmental and food samples. In order to select the optimum material, a combinatorial library of molecularly imprinted polymers in small-scale...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/138620706779026024

    authors: Martin-Esteban A,Tadeo JL

    更新日期:2006-12-01 00:00:00

  • A high throughput fluorescence polarization assay for inhibitors of the GoLoco motif/G-alpha interaction.

    abstract::The GoLoco motif is a short Galpha-binding polypeptide sequence. It is often found in proteins that regulate cell-surface receptor signaling, such as RGS12, as well as in proteins that regulate mitotic spindle orientation and force generation during cell division, such as GPSM2/LGN. Here, we describe a high throughput...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/138620708784534770

    authors: Kimple AJ,Yasgar A,Hughes M,Jadhav A,Willard FS,Muller RE,Austin CP,Inglese J,Ibeanu GC,Siderovski DP,Simeonov A

    更新日期:2008-06-01 00:00:00

  • A convenient synthesis of 2-imino-1,3-thiazine-4-one derivatives from the reaction of primary amines and phenyl isothiocyanate in the presence of acryloyl chloride.

    abstract::An efficient, one-pot and three-component synthesis of biologically important heterocyclic compounds is described from the reaction of primary amines and phenyl isothiocyanate in the presence of acryloyl chloride at room temperature without the need to use any catalyst. ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207317666140313110334

    authors: Zolali A,Nasiri F,Omid-Niakan S

    更新日期:2014-01-01 00:00:00

  • "In silico" design of potential anti-HIV actives using fragment descriptors.

    abstract::Substructural Molecular Fragments (SMF) method was applied for computer-aided design of new compounds potentially possessing high anti-HIV activities: tetrahydroimidazobenzodiazepinone (TIBO) derivatives and 1-[2-hydroxyethoxy)methyl]-6-(phenylthio)thymine (HEPT) derivatives. Using available experimental data, the SMF...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207054546513

    authors: Varnek A,Solov'ev VP

    更新日期:2005-08-01 00:00:00

  • High throughput determination of gains and losses of genetic material using high resolution BAC arrays and comparative genomic hybridization.

    abstract::Chromosome analysis has been a cornerstone both for the identification of genetic defects that predispose to a variety of genetic syndromes as well as for the analysis of cancer progression. The relatively low resolution of metaphase chromosomes, however, only allows characterization of major genetic events which are ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/1386207043328481

    authors: Cowell JK

    更新日期:2004-09-01 00:00:00

  • Functional genomics and NMR spectroscopy.

    abstract::The recent success of the human genome project and the continued accomplishment in obtaining DNA sequences for a vast array of organisms is providing an unprecedented wealth of information. Nevertheless, an abundance of the proteome contains hypothetical proteins or proteins of unknown function, where high throughput ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/138620707782507331

    authors: Powers R

    更新日期:2007-09-01 00:00:00

  • Massively parallel screening of the receptorome.

    abstract::The National Institute of Mental Health (NIMH) Psychoactive Drug Screening Program (PDSP) is a resource that provides free screening of novel compounds to academic investigators. This program differs from other public-sector screening programs in that compounds are screened against a large panel of transmembrane recep...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/138620708784911483

    authors: Jensen NH,Roth BL

    更新日期:2008-07-01 00:00:00

  • Hadoop-MCC: Efficient Multiple Compound Comparison Algorithm Using Hadoop.

    abstract:AIM AND OBJECTIVE:In the past decade, the drug design technologies have been improved enormously. The computer-aided drug design (CADD) has played an important role in analysis and prediction in drug development, which makes the procedure more economical and efficient. However, computation with big data, such as ZINC c...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207321666180102120641

    authors: Hua GJ,Hung CL,Tang CY

    更新日期:2018-01-01 00:00:00

  • Assays of ligand-human serum albumin binding using pulsed ultrafiltration and liquid chromatography-mass spectrometry.

    abstract::Two approaches were utilized to increase the throughput of pulsed ultrafiltration assays of ligand binding to human serum albumin, reducing the volume of the ultrafiltration chamber and combining pulsed ultrafiltration with high performance liquid chromatography-atmospheric pressure chemical ionization mass spectromet...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:

    authors: Gu C,Nikolic D,Lai J,Xu X,van Breemen RB

    更新日期:1999-12-01 00:00:00

  • Constructing a Risk Prediction Model for Lung Cancer Recurrence by Using Gene Function Clustering and Machine Learning.

    abstract:OBJECTIVE:A significant proportion of patients with early non-small cell lung cancer (NSCLC) can be cured by surgery. The distant metastasis of tumors is the most common cause of treatment failure. Precisely predicting the likelihood that a patient develops distant metastatic risk will help identify patients who can fu...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207322666190129111749

    authors: Zhong J,Chen JM,Chen SL,Yi YF

    更新日期:2019-01-01 00:00:00

  • Design, Synthesis and Biological Evaluation of New Cycloalkyl Fused Quinolines Tethered to Isatin Schiff Bases as Cholinesterase Inhibitors.

    abstract:AIMS AND OBJECTIVE:Alzheimer's disease is now a most prevalent neuro degenerative disease of central nervous system leading to dementia in elderly aged population. Numerous pathological changes have been associated in the progression of Alzheimer's disease. One of such pathological hypothesis is declined cholinergic ac...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207323666201211092138

    authors: Macha B,Kulkarni R,Garige AK,Palabindala R,Akkinepally R,Garlapati A

    更新日期:2020-12-10 00:00:00

  • Design of phenotypic screens for bioactive chemicals and identification of their targets by genetic and proteomic approaches.

    abstract::Cell-based screening using phenotypic assays is a useful means of identifying bioactive chemicals for use as tools to elucidate complex cellular processes. However, the chemicals must display sufficient selectivity and their targets have to be identified. We describe how cell-based screening assays can be designed to ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/138620708785739934

    authors: Schriemer DC,Kemmer D,Roberge M

    更新日期:2008-09-01 00:00:00

  • Rapid identification of allergen-encoding cDNA clones by phage display and high-density arrays.

    abstract::We describe a high-throughput, quantitative technology for fast identification of all different clones present in selectively enriched phage surface-displayed cDNA libraries. The strategy is based on a combination of phage display and high-density arrays. To demonstrate the utility of the method cDNAs of Aspergillus f...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207033329751

    authors: Kodzius R,Rhyner C,Konthur Z,Buczek D,Lehrach H,Walter G,Crameri R

    更新日期:2003-03-01 00:00:00

  • Chemogenomics with peptide secondary structure mimetics.

    abstract::There is increasing evidence that redox regulation of transcription, particularly activator protein-1 (AP-1) and nuclear factor kappa B (NF-kappaB), is important in inflammatory diseases. Human thioredoxin (TRX), a member of the oxidoreductase superfamily, was initially identified, as a factor which augments the produ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章,评审

    doi:10.2174/138620703771981197

    authors: Eguchi M,McMillan M,Nguyen C,Teo JL,Chi EY,Henderson WR Jr,Kahn M

    更新日期:2003-11-01 00:00:00

  • Analytical characterization of label-free immunosensor subsystems based on multi-walled carbon nanotube array-modified gold interface.

    abstract::In the present work, we report characterization studies of antigen(Ag)-antibody (Ab) interaction based on the multi-walled carbon nanotube array-modified gold electrode for label-free electrochemical immunosensor. -COOH functionalization of MWCNT was suggested by FTIR spectroscopy. Images from atomic force microscopy ...

    journal_title:Combinatorial chemistry & high throughput screening

    pub_type: 杂志文章

    doi:10.2174/1386207318666141212165513

    authors: Zahmatkeshan M,Ilkhani H,Paknejad M,Adel M,Sarkar S,Saber R

    更新日期:2015-01-01 00:00:00