Abstract:
:Centromeric variation has been linked to cancer and infertility, but centromere sequences contain multiple tandem repeats and can only be assembled manually from long error-prone reads. Here we describe the centroFlye algorithm for centromere assembly using long error-prone reads, and apply it to assemble human centromeres on chromosomes 6 and X. Our analyses reveal putative breakpoints in the manual reconstruction of the human X centromere, demonstrate that human X chromosome is partitioned into repeat subfamilies and provide initial insights into centromere evolution. We anticipate that centroFlye could be applied to automatically close remaining multimegabase gaps in the reference human genome.
journal_name
Nat Biotechnoljournal_title
Nature biotechnologyauthors
Bzikadze AV,Pevzner PAdoi
10.1038/s41587-020-0582-4subject
Has Abstractpub_date
2020-11-01 00:00:00pages
1309-1316issue
11eissn
1087-0156issn
1546-1696pii
10.1038/s41587-020-0582-4journal_volume
38pub_type
杂志文章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::We have developed a platform for cell analysis based on immunomagnetic selection and magnetic alignment of cells in combination with an epi-illumination tracking and detection system. Whole blood was labeled with ferromagnetic nanoparticles and fluorescent probes, and placed in a magnetic field in a chamber. Cells lab...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/70761
更新日期:1999-12-01 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::The unique bread-making characteristic of wheat flour is closely related to the elasticity and extensibility of the gluten proteins stored in the starchy endosperm, particularly the high-molecular-weight glutenin subunits (HMW-GS), which are important in determining gluten and dough elasticity. The quality of wheat cu...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt0996-1155
更新日期:1996-09-01 00:00:00
abstract::For the past five decades, the need for new antibiotics has been met largely by semisynthetic tailoring of natural product scaffolds discovered in the middle of the 20(th) century. More recently, however, advances in technology have sparked a resurgence in the discovery of natural product antibiotics from bacterial so...
journal_title:Nature biotechnology
pub_type: 杂志文章,评审
doi:10.1038/nbt1266
更新日期:2006-12-01 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: 杂志文章,已发布勘误
doi:10.1038/s41587-020-0510-7
更新日期:2020-05-01 00:00:00
abstract::Lysosomal storage diseases are treated with human lysosomal enzymes produced in mammalian cells. Such enzyme therapeutics contain relatively low levels of mannose-6-phosphate, which is required to target them to the lysosomes of patient cells. Here we describe a method for increasing mannose-6-phosphate modification o...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.2427
更新日期:2012-12-01 00:00:00
abstract::Thermostable enzymes combine catalytic specificity with the toughness required to withstand industrial reaction conditions. Stabilized enzymes also provide robust starting points for evolutionary improvement of other protein properties. We recently created a library of at least 2,300 new active chimeras of the biotech...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt1333
更新日期:2007-09-01 00:00:00
abstract::Efficient analysis of very large amounts of raw data for peptide identification and protein quantification is a principal challenge in mass spectrometry (MS)-based proteomics. Here we describe MaxQuant, an integrated suite of algorithms specifically developed for high-resolution, quantitative MS data. Using correlatio...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.1511
更新日期:2008-12-01 00:00:00
abstract::Field tests of corn co-expressing two new delta-endotoxins from Bacillus thuringiensis (Bt) have demonstrated protection from root damage by western corn rootworm (Diabrotica virgifera virgifera LeConte). The level of protection exceeds that provided by chemical insecticides. In the bacterium, these proteins form crys...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/90282
更新日期:2001-07-01 00:00:00
abstract::The Human Proteome Organization (HUPO) recently completed the first large-scale collaborative study to characterize the human serum and plasma proteomes. The study was carried out in different locations and used diverse methods and instruments to compare and integrate tandem mass spectrometry (MS/MS) data on aliquots ...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt1183
更新日期:2006-03-01 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::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::We established a catalog of the mouse gut metagenome comprising ∼2.6 million nonredundant genes by sequencing DNA from fecal samples of 184 mice. To secure high microbiome diversity, we used mouse strains of diverse genetic backgrounds, from different providers, kept in different housing laboratories and fed either a ...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.3353
更新日期:2015-10-01 00:00:00
abstract::After nearly 40 years of development, oligonucleotide therapeutics are nearing meaningful clinical productivity. One of the key advantages of oligonucleotide drugs is that their delivery and potency are derived primarily from the chemical structure of the oligonucleotide whereas their target is defined by the base seq...
journal_title:Nature biotechnology
pub_type: 杂志文章,评审
doi:10.1038/nbt.3765
更新日期:2017-03-01 00:00:00
abstract::Whole-genome mRNA quantitation can be used to identify the genes that are most responsive to environmental or genotypic change. By searching for mutually similar DNA elements among the upstream non-coding DNA sequences of these genes, we can identify candidate regulatory motifs and corresponding candidate sets of core...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt1098-939
更新日期:1998-10-01 00:00:00
abstract::Therapeutic ex vivo T-cell expansion is limited by low rates and T-cell products of limited functionality. Here we describe a system that mimics natural antigen-presenting cells (APCs) and consists of a fluid lipid bilayer supported by mesoporous silica micro-rods. The lipid bilayer presents membrane-bound cues for T-...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.4047
更新日期:2018-02-01 00:00:00
abstract::Influenza A virus leads to yearly epidemics and sporadic pandemics. Present prophylactic strategies focus on egg-grown, live, attenuated influenza vaccines (LAIVs), in which attenuation is generated by conferring temperature sensitivity onto the virus. Here we describe an alternative approach to attenuating influenza ...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.1542
更新日期:2009-06-01 00:00:00
abstract::To enhance milk composition and milk processing efficiency by increasing the casein concentration in milk, we have introduced additional copies of the genes encoding bovine beta- and kappa-casein (CSN2 and CSN3, respectively) into female bovine fibroblasts. Nuclear transfer with four independent donor cell lines resul...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt783
更新日期:2003-02-01 00:00:00
abstract::We have developed novel nucleic acid probes that recognize and report the presence of specific nucleic acids in homogeneous solutions. These probes undergo a spontaneous fluorogenic conformational change when they hybridize to their targets. Only perfectly complementary targets elicit this response, as hybridization d...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt0396-303
更新日期:1996-03-01 00:00:00
abstract::The potential therapeutic applications of encapsulated cells are enormous. In the US alone, it has been estimated that nearly half-a-trillion dollars are spent each year to care for patients who suffer tissue loss or dysfunction. Over 6 million patients suffer from neurodegenerative disorders such as Alzheimer's disea...
journal_title:Nature biotechnology
pub_type: 杂志文章,评审
doi:10.1038/nbt0996-1107
更新日期:1996-09-01 00:00:00
abstract::RNA interference (RNAi) induced by short interfering RNA (siRNA) allows for discovery research and large-scale screening; however, owing to their size and anionic charge, siRNAs do not readily enter cells. Current approaches do not deliver siRNAs into a high percentage of primary cells without cytotoxicity. Here we re...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.1541
更新日期:2009-06-01 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: 杂志文章,已发布勘误
doi:10.1038/s41587-020-0457-8
更新日期:2020-03-01 00:00:00
abstract::High-density short oligonucleotide microarrays have become a widely used tool for measuring gene expression on a large scale. However, details of the mechanism of binding on microarrays remain unclear. Short oligonucleotide probes currently synthesized on microarrays are often ineffective as a result of limited sequen...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt836
更新日期:2003-07-01 00:00:00
abstract::Analysis of abnormally methylated genes is increasingly important in basic research and in the development of cancer biomarkers. We have developed methyl-BEAMing technology to enable absolute quantification of the number of methylated molecules in a sample. Individual DNA fragments are amplified and analyzed either by...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.1559
更新日期:2009-09-01 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::The expression patterns of eukaryotic genomes are controlled by their chromatin structure, consisting of nucleosome subunits in which DNA of approximately 146 bp is wrapped around a core of 8 histone molecules. Post-translational histone modifications play an essential role in modifying chromatin structure. Here we ap...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt990
更新日期:2004-08-01 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::The nonprofit Pew Initiative on Food and Biotechnology is closing, but the need for an independent and neutral body to facilitate dialog on US biotech policy has never been greater. ...
journal_title:Nature biotechnology
pub_type: 社论
doi:10.1038/nbt0207-143
更新日期:2007-02-01 00:00:00
abstract::Transcriptomic analyses have revealed an unexpected complexity to the human transcriptome, whose breadth and depth exceeds current RNA sequencing capability. Using tiling arrays to target and sequence select portions of the transcriptome, we identify and characterize unannotated transcripts whose rare or transient exp...
journal_title:Nature biotechnology
pub_type: 杂志文章
doi:10.1038/nbt.2024
更新日期:2011-11-13 00:00:00