Abstract：
:DNA microarrays have the ability to analyze the expression of thousands of the same set of genes under at least two different experimental conditions. However, DNA microarrays require substantial amounts of RNA to generate the probes, especially when bacterial RNA is used for hybridization (50 microg of bacterial total RNA contains approximately 2 microg of mRNA). We have developed a computer-based algorithm for prediction of the minimal number of primers to specifically anneal to all genes in a given genome. The algorithm predicts, for example, that 37 oligonucleotides should prime all genes in the Mycobacterium tuberculosis genome. We tested the usefulness of the genome-directed primers (GDPs) in comparison to random primers for gene expression profiling using DNA microarrays. Both types of primers were used to generate fluorescent-labeled probes and to hybridize to an array of 960 mycobacterial genes. Compared to random-primer probes, the GDP probes were more sensitive and more specific, especially when mammalian RNA samples were spiked with mycobacterial RNA. The GDPs were used for gene expression profiling of mycobacterial cultures grown to early log or stationary growth phases. This approach could be useful for accurate genome-wide expression analysis, especially for in vivo gene expression profiling, as well as directed amplification of sequenced genomes.
journal_name
Nat Biotechnoljournal_title
Nature biotechnologyauthors
Talaat AM,Hunter P,Johnston SAdoi
10.1038/76543subject
Has Abstractpub_date
2000-06-01 00:00:00pages
679-82issue
6eissn
1087-0156issn
1546-1696journal_volume
18pub_type
杂志文章abstract：:Debates on patenting DNA must evolve to reflect the global decline in filings and regional disparities in patenting activity. ...
journal_title：Nature biotechnology
pub_type： 杂志文章,评审
doi：10.1038/nbt0207-185
更新日期：2007-02-01 00:00:00
abstract：:Systemic lupus erythematosus (SLE) is a multisystem chronic inflammatory disease of unknown etiology that affects many organs, including the kidney. The presence of multiple autoantibodies and other immunological abnormalities point to basic defects in immunoregulatory controls that normally maintain self-tolerance. T...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/77296
更新日期：2000-07-01 00:00:00
abstract：:Although mass spectrometry is well suited to identifying thousands of potential protein post-translational modifications (PTMs), it has historically been biased towards just a few. To measure the entire set of PTMs across diverse proteomes, software must overcome the dual challenges of covering enormous search spaces ...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/s41587-019-0067-5
更新日期：2019-04-01 00:00:00
abstract：:The oncofetal fibronectin (B-FN) isoform is present in vessels of neoplastic tissues during angiogenesis but not in mature vessels. B-FN could therefore provide a target for diagnostic imaging and therapy of cancer. Phage display libraries have been used to isolate human antibody fragments with pan-species recognition...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt1197-1271
更新日期：1997-11-01 00:00:00
abstract：:One-size-fits-all intravenous delivery of biologics may be giving way to alternate delivery routes that enable safer and more efficient drug administration. Michael Eisenstein reports. ...
journal_title：Nature biotechnology
pub_type： 新闻
doi：10.1038/nbt.1768
更新日期：2011-02-01 00:00:00
abstract：:Reproducibility in research can be compromised by both biological and technical variation, but most of the focus is on removing the latter. Here we investigate the effects of biological variation in HeLa cell lines using a systems-wide approach. We determine the degree of molecular and phenotypic variability across 14...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/s41587-019-0037-y
更新日期：2019-03-01 00:00:00
abstract：:Current DNA methylation assays are limited in the flexibility and efficiency of characterizing a large number of genomic targets. We report a method to specifically capture an arbitrary subset of genomic targets for single-molecule bisulfite sequencing for digital quantification of DNA methylation at single-nucleotide...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.1530
更新日期：2009-04-01 00:00:00
abstract：:Relatively low levels of expression from naturally occurring promoters have limited the use of muscle as a gene therapy target. Myogenic restricted gene promoters display complex organization usually involving combinations of several myogenic regulatory elements. By random assembly of E-box, MEF-2, TEF-1, and SRE site...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/6981
更新日期：1999-03-01 00:00:00
abstract：:The interaction between the HSP90 chaperone and its client kinases is sensitive to the conformational status of the kinase, and stabilization of the kinase fold by small molecules strongly decreases chaperone interaction. Here we exploit this observation and assay small-molecule binding to kinases in living cells, usi...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.2620
更新日期：2013-07-01 00:00:00
abstract：:The reactive thiol in cysteine is used for coupling maleimide linkers in the generation of antibody conjugates. To assess the impact of the conjugation site, we engineered cysteines into a therapeutic HER2/neu antibody at three sites differing in solvent accessibility and local charge. The highly solvent-accessible si...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.2108
更新日期：2012-01-22 00:00:00
abstract：:Purging of tumor cells and selection of stem cells are key technologies for enabling stem cell transplantation and stem cell gene therapy. Here we report a strategy for cell selection based on physical properties of the cells. Exposing cells to an external pulsed electric field (PEF) increases the natural potential di...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/78504
更新日期：2000-08-01 00:00:00
abstract：:The gold standard for clinical diagnosis of bacterial lower respiratory infections (LRIs) is culture, which has poor sensitivity and is too slow to guide early, targeted antimicrobial therapy. Metagenomic sequencing could identify LRI pathogens much faster than culture, but methods are needed to remove the large amoun...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/s41587-019-0156-5
更新日期：2019-07-01 00:00:00
abstract：:The vast selection of Drosophila mutants is an extraordinary resource for exploring molecular events underlying development and disease. We have designed and constructed an instrument that automatically separates Drosophila embryos of one genotype from a larger population of embryos, based on a fluorescent protein mar...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/84422
更新日期：2001-02-01 00:00:00
abstract：:As the cost of human genome sequencing plunges and large-scale genome-phenotype studies become possible, society should do more to reward those individuals who choose to disclose their data, despite the risks. ...
journal_title：Nature biotechnology
pub_type： 评论,社论
doi：10.1038/nbt0909-777
更新日期：2009-09-01 00:00:00
abstract：:Recombinant adeno-associated viruses (rAAVs) are commonly used vehicles for in vivo gene transfer. However, the tropism repertoire of naturally occurring AAVs is limited, prompting a search for novel AAV capsids with desired characteristics. Here we describe a capsid selection method, called Cre recombination-based AA...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.3440
更新日期：2016-02-01 00:00:00
abstract：:Changes in glycosylation are often associated with disease progression, but the genetic and metabolic basis of these events is rarely understood in detail at a molecular level. We describe a metabolism-based approach to the selection of mutants in glycoconjugate biosynthesis that provides insight into regulatory mecha...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/89305
更新日期：2001-06-01 00:00:00
abstract：:The specificity of biological regulatory mechanisms relies on selective interactions between different proteins in different cell types and in response to different extracellular signals. We describe a bimolecular fluorescence complementation (BiFC) approach for the simultaneous visualization of multiple protein inter...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt816
更新日期：2003-05-01 00:00:00
abstract：:Organophosphorus hydrolase (OPH) was displayed and anchored onto the surface of Escherichia coli using an Lpp-OmpA fusion system. Production of the fusion proteins in membrane fractions was verified by immunoblotting with OmpA antisera. Inclusion of the organophosphorus hydrolase signal sequence was necessary for achi...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt1097-984
更新日期：1997-10-01 00:00:00
abstract：:A detailed understanding of the function of neural networks and how they are supported by a dynamic vascular system requires fast three-dimensional imaging in thick tissues. Here we present confocal light field microscopy, a method that enables fast volumetric imaging in the brain at depths of hundreds of micrometers....
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/s41587-020-0628-7
更新日期：2021-01-01 00:00:00
abstract：:Genome editing with targeted nucleases and DNA donor templates homologous to the break site has proven challenging in human hematopoietic stem and progenitor cells (HSPCs), and particularly in the most primitive, long-term repopulating cell population. Here we report that combining electroporation of zinc finger nucle...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.3408
更新日期：2015-12-01 00:00:00
abstract：:Genetic studies of human disease have traditionally focused on the detection of disease-causing mutations in afflicted individuals. Here we describe a complementary approach that seeks to identify healthy individuals resilient to highly penetrant forms of genetic childhood disorders. A comprehensive screen of 874 gene...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.3514
更新日期：2016-05-01 00:00:00
abstract：:Transcriptional silencing, one of the major impediments to gene therapy in humans, is often accompanied by replication during late S-phase. We report that transcriptional silencing and late replication were prevented by DNA sequences that can initiate DNA replication (replicators). When replicators were included in si...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt1202
更新日期：2006-05-01 00:00:00
abstract：:Excessive and prolonged activity of inflammatory monocytes is a hallmark of many diseases with an inflammatory component. In such conditions, precise targeting of these cells could be therapeutically beneficial while sparing many essential functions of the innate immune system, thus limiting unwanted effects. Inflamma...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.1989
更新日期：2011-10-09 00:00:00
abstract：:Recent therapeutic successes have renewed interest in drug combinations, but experimental screening approaches are costly and often identify only small numbers of synergistic combinations. The DREAM consortium launched an open challenge to foster the development of in silico methods to computationally rank 91 compound...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt.3052
更新日期：2014-12-01 00:00:00
abstract：:By using an engineered, self-assembling, proteinaceous, 2-nm pore equipped with a metal-actuated switch, a technique to reversibly permeabilize the plasma membrane to small molecules (approximately 1000 Da) has been developed. We have demonstrated the dose-dependent permeabilization of fibroblasts by pores designed to...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt0397-278
更新日期：1997-03-01 00:00:00
abstract：:An approach to the systematic identification and quantification of the proteins contained in the microsomal fraction of cells is described. It consists of three steps: (1) preparation of microsomal fractions from cells or tissues representing different states; (2) covalent tagging of the proteins with isotope-coded af...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/nbt1001-946
更新日期：2001-10-01 00:00:00
abstract：:The biological and physical sciences share a common interest in small structures (the definition of 'small' depends on the application, but can range from 1 nm to 1 mm). A vigorous trade across the borders of these areas of science is developing around new materials and tools (largely from the physical sciences) and n...
journal_title：Nature biotechnology
pub_type： 杂志文章,评审
doi：10.1038/nbt872
更新日期：2003-10-01 00:00:00
abstract：:Phosphorus (P) is one of the most important nutrients limiting agricultural production worldwide. In acid and alkaline soils, which make up over 70% of the world's arable land, P forms insoluble compounds that are not available for plant use. To reduce P deficiencies and ensure plant productivity, nearly 30 million to...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/74531
更新日期：2000-04-01 00:00:00
abstract：:Bone morphogenetic proteins (BMPs) that have the potential to elicit new bone in vivo have been used in a tissue-engineering approach for the repair of bone injuries and bone defects. Although it is now possible to generate large amounts of recombinant human (rh) BMPs for medical use, the major challenge remains in th...
journal_title：Nature biotechnology
pub_type： 杂志文章
doi：10.1038/86715
更新日期：2001-04-01 00:00:00
abstract：:An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...
journal_title：Nature biotechnology
pub_type： 已发布勘误
doi：10.1038/s41587-020-0658-1
更新日期：2020-09-01 00:00:00
