Abstract:
:De novo design provides an in silico toolkit for the design of novel small molecular structures to a set of specified structural constraints. With the avalanche of bioinformatics data, de novo design is ideally suited for exploring molecules that could be useful for chemical genomics. The design process involves manipulation of the input, modification of structural constraints, and further processing of the de novo generated molecules using various modular toolkits. The development of a theoretical framework for each of these stages will provide novel practical solutions to the problem of creating compounds with maximal chemical diversity. This short review describes the fundamental problems encountered in the application of novel chemical design technologies to chemical genomics by means of a formal representation. This notation helps to outline and clarify ideas and hypotheses that can then be explored using mathematical algorithms. It is only by developing this rigorous foundation that in silico design can progress in a rational way.
journal_name
Mol Biotechnoljournal_title
Molecular biotechnologyauthors
Dean PMdoi
10.1007/s12033-007-0037-xsubject
Has Abstractpub_date
2007-11-01 00:00:00pages
237-45issue
3eissn
1073-6085issn
1559-0305journal_volume
37pub_type
杂志文章,评审abstract::In this study, human alpha-1,4-N-acetylglucosaminyltransferase (alpha4GnT) fused with GFP(uv) (GFP(uv)-alpha4GnT) was expressed using both a transformed cell system and silkworm larvae. A Tn-pXgp-GFP(uv)-alpha4GnT cell line, isolated after expression vector transfection, produced 106 mU/ml of alpha4GnT activity in sus...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-009-9174-8
更新日期:2009-09-01 00:00:00
abstract::The REDOX-RESPONSIVE TRANSCRIPTION FACTOR 1 (RRTF1) gene encodes a member of the ERF/AP2 transcription factor family involved in redox homeostasis. The RRTF1 gene shows tissue-specific responsiveness to various abiotic stress treatments including a response to salt stress in roots. An interesting feature of this respo...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-019-00155-9
更新日期:2019-04-01 00:00:00
abstract::In this study, host-specific forms of the blast pathogen Magnaporthe oryzae in sub-Saharan Africa (SSA) were characterised from distinct cropping locations using a combination of molecular and biological assays. Finger millet blast populations in East Africa revealed a continuous genetic variation pattern and lack of ...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-011-9429-z
更新日期:2012-02-01 00:00:00
abstract::We report a rapid and simple method for isolating the 5'-end of plant genes from genomic DNA by polymerase chain reaction (PCR) with TATA-box-based degenerate primers (TDPs). The TDPs were specially designed according to the TATA box, which is conserved in the promoter region of most plant genes. The unknown 5'-ends o...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-010-9323-0
更新日期:2011-02-01 00:00:00
abstract::Molecular biological methods that use antibodies and nucleic acids to detect specific foodborne bacterial pathogens were scarcely known a decade and a half ago. Few scientists could have predicted that these tools of basic research would come to dominate the field of food diagnostics. Today, a large number of cleverly...
journal_title:Molecular biotechnology
pub_type: 杂志文章,评审
doi:10.1007/BF02740817
更新日期:1997-06-01 00:00:00
abstract::Epoxide hydrolases (EHs; 3.3.2.x) catalyze the enantioselective ring opening of racemic epoxides to the corresponding enantiopure vicinal diols and remaining equivalent unreacted epoxides. These epoxides and diols are used for the synthesis of chiral drug intermediates. With an upsurge in the methods for identificatio...
journal_title:Molecular biotechnology
pub_type: 杂志文章,评审
doi:10.1007/s12033-017-9996-8
更新日期:2017-03-01 00:00:00
abstract::PREP1/p160 is a protein complex with relevant physiopathological roles in vivo. p160 regulates PREP1 transcriptional activity by preventing the formation of other PREP1-containing complexes, whereas PREP1 regulates p160 activity by increasing its stability. This induces the repression of the insulin-regulated glucose ...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-016-9932-3
更新日期:2016-05-01 00:00:00
abstract::Classic toxicology studies often utilize in vivo animal models. Newer approaches employing in vitro organ-specific cellular models have been developed in recent years to help accelerate the speed and reduce the cost of traditional toxicology testing. Toward the goal of supporting in vitro cellular model research with ...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-020-00245-z
更新日期:2020-04-01 00:00:00
abstract::Fibrillation of α-synuclein proceeds through distinct stages, with oligomers combining to form the seed or the nucleus, followed by exponential and saturation phases. Osmolytes are considered to act as protein stabilizers by virtue of their ability to inhibit protein aggregation. Trehalose, a non-reducing disaccharide...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-016-9923-4
更新日期:2016-04-01 00:00:00
abstract::Despite the known importance of the composition of culture media and culture conditions on Bacillus thuringiensis growth and toxicity, very few reviews are concerned with this subject. This article reviews some aspects of the microbiology of Bacillus thuringiensis, and how toxicity is affected by the composition of gr...
journal_title:Molecular biotechnology
pub_type: 杂志文章,评审
doi:10.1007/BF02907471
更新日期:1995-08-01 00:00:00
abstract::In order to further study the B subunit of the Escherichia coli heat-labile enterotoxin (LTB), we obtained the LTB gene from pathogenic E. coli, cloned it into the pET22b (+) prokaryotic expression vector, and expressed it as a fusion protein with His tag in E. coli BL21 (DE3). The recombinant LTB was expressed and pu...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-008-9101-4
更新日期:2009-02-01 00:00:00
abstract::Deficiency of the lysosomal glucocerebrosidase (GCR) enzyme results in Gaucher's disease, the most common inherited storage disorder. Treatment consists of enzyme replacement therapy by the administration of recombinant GCR produced in Chinese hamster ovary cells. The production of anti-GCR antibodies has already been...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-010-9303-4
更新日期:2010-11-01 00:00:00
abstract::Heat shock proteins (HSPs) are upregulated in response to stress and play a protective function in refolding of cellular proteins. In hypertension, the heart is a vital organ that requires examination and investigation, and primary induction of HSPs is predominantly effected. Hypertension results from osmotic imbalanc...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-009-9144-1
更新日期:2009-06-01 00:00:00
abstract::While conducting our research on mutations in the human blood platelet glycoprotein Ib-alpha (GPIbalpha) gene, we detected an unusual deletion of 84 bp. This deletion took place in vitro, during PCR and between two direct repeats. It was observed that the deletion could be detected either by the direct sequencing of t...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-008-9059-2
更新日期:2008-09-01 00:00:00
abstract::G-quartets are square planar arrangements of four guanine bases, which can form extraordinarily stable stacks when present in nucleic acid sequences. Such G-quadruplex structures were long regarded as an in vitro phenomenon, but the widespread presence of suitable sequences in genomes and the identification of protein...
journal_title:Molecular biotechnology
pub_type: 杂志文章,评审
doi:10.1007/s12033-011-9395-5
更新日期:2011-10-01 00:00:00
abstract::Neuroblastoma is the most common extracranial solid tumor of infancy. Amplification of MYCN oncogene is found in approximately 20 % of all neuroblastoma patients and correlates with advanced disease stages, rapid tumor progression, and poor prognosis, making this gene an obvious therapeutic target. However, being a tr...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-014-9739-z
更新日期:2014-07-01 00:00:00
abstract::Human adipose tissue-derived stromal cells (ADSCs) are being evaluated for cardiovascular repair. We developed an ex vivo method for producing angiogenic ADSCs transduced with a self-inactivating lentiviral vector (LV) expressing the enhanced green fluorescence protein (EGFP) from an internal cytomegalovirus (CMV) pro...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-012-9537-4
更新日期:2013-05-01 00:00:00
abstract::Podophyllotoxin (PPT) is a plant natural product that serves as a precursor for the synthesis of many well-known chemotherapeutic drugs. The limited availability and high demand for the source plants of PPT have led to the exploration of alternative sources for this compound. In this study, we utilized the endophytic ...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-015-9888-8
更新日期:2015-12-01 00:00:00
abstract::D-Glucosamine is a commonly used dietary supplement that promotes cartilage health in humans. Metabolic flux analysis showed that D-glucosamine production could be increased by blocking three pathways involved in the consumption of glucosamine-6-phosphate and acetylglucosamine-6-phosphate. By homologous single-exchang...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-020-00257-9
更新日期:2020-08-01 00:00:00
abstract::An inexpensive monophasic reagent has been developed for the extraction of total RNA from cells or tissues. The main ingredients of the reagent are Phenol, Isoamyl alcohol, Guanidinium isothiocyanate, and Beta-mercaptoethanol (PIG-B). The quality and yield of RNA obtained by this reagent is at par with that obtained b...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/BF02752699
更新日期:1998-02-01 00:00:00
abstract::Plants synthesize amino acids by collateral metabolic pathways using primary elements carbon and oxygen from air, hydrogen from water in soil and nitrogen from soil. Following synthesis, amino acids are immediately used for metabolism, transient storage or transported to the phloem. Different families of transporters ...
journal_title:Molecular biotechnology
pub_type: 杂志文章,收录出版
doi:10.1007/s12033-020-00240-4
更新日期:2020-03-01 00:00:00
abstract::Addition of taxol into suspension cultures of Taxus cuspidata induced cell apoptosis, which was confirmed by gel electrophoresis of the DNA ladders indicating the progressive delineation of fragmented nuclear DNA (nDNA) into distinct bodies. The additional taxol not only changed the microtubule assembly of cells, but ...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1385/MB:20:2:137
更新日期:2002-02-01 00:00:00
abstract::Many phytopathogenic micro-organisms such as bacteria and fungi produce pectin methylesterases (PME) during plant invasion. Plants and insects also produce PME to degrade plant cell wall. In the present study, a thermostable pectin methylesterase (CtPME) from Clostridium thermocellum belonging to family 8 carbohydrate...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-017-9997-7
更新日期:2017-05-01 00:00:00
abstract::The gram-negative anaerobic oral bacterium Porphyromonas gingivalis initiates periodontal disease through fimbrial attachment to saliva-coated oral surfaces. To study the effects of immunomodulation on enhancement of subunit vaccination, the expression in E. coli and immunogenicity of P. gingivalis fimbrial protein (F...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-008-9102-3
更新日期:2009-02-01 00:00:00
abstract::Adeno-associated virus (AAV) is a small, non-enveloped virus used as vector in gene therapy, mainly produced in human cells and in baculovirus systems. Intense studies on these platforms led to the production of vectors with titers between 103 and 105 viral genomes (vg) per cells. In spite of this, vector yields need ...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-020-00294-4
更新日期:2021-02-01 00:00:00
abstract::Several mutations were introduced into the Cry1Ac toxin gene, resulting in four variants with altered sequences that were responsible for low expression of the toxin in transgenic plants. These variants were as follows: V1, with modified three A/T-rich regions, including the first signal of transcription termination; ...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1385/mb:26:1:17
更新日期:2004-01-01 00:00:00
abstract::Isolation of high quality nucleic acids from plant tissues rich in polysaccharides and polyphenols is often difficult. The presence of these substances can affect the quality and/or quantity of the nucleic acids isolated. Here, we describe a rapid and efficient nucleic acids extraction protocol that in contrast to oth...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/s12033-011-9384-8
更新日期:2011-10-01 00:00:00
abstract::Association studies using genome scans to identify quantitative trait loci for multifactorial disorders, with anything approaching reasonable power, have been compromised by the need for a very dense array of genetic markers and large numbers of affected individuals. These requirements impose enormous burdens on the g...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1385/mb:22:3:253
更新日期:2002-11-01 00:00:00
abstract::In mammals, CpG methylation is one of the mechanisms of epigenetic control over the linear sequence of bases of deoxyribonucleic acid (DNA); about 70% of CpG dinucleotides are methylated. The actual signal that triggers DNA methylation is not known, although repetitive DNA has been shown to be an attractive template f...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1385/MB:26:3:215
更新日期:2004-03-01 00:00:00
abstract::A short (43-bp) A/T-rich stretch of DNA located in the intergenic region between the baiA2 and baiF genes from Eubacterium sp. strain VPI 12708 was amplified by polymerase chain reaction (PCR) and inserted in front of the Shine-Dalgarno (SD) sequences of three inefficiently-expressed Eubacterium sp. strain VPI 12708 g...
journal_title:Molecular biotechnology
pub_type: 杂志文章
doi:10.1007/BF02789174
更新日期:1999-02-01 00:00:00