oxford nanopore technologies
oxford nanopore’s minion™ usb - attached miniature sensing device. photo: oxford nanopore technologies
press release: oxford nanopore technologies: new study: oxford nanopore technologies ltd. - strategic swot analysis review
press release: oxford nanopore technologies: new report available: oxford nanopore technologies ltd. - medical equipment - deals and alliances profile
the minion™ dna sequencer from oxford nanopore technologies fits in the palm of a hand. (photo credit: oxford nanopore technologies )
( pr - inside. com) oxford nanopore technologies ltd. (oxford nanopore), formerly oxford nanolabs ltd. , i ...
james brayer, oxford nanopore technologies inc. , cambridge, ma, united states
oxford nanopore: oxford nanopore' s valuation hits £1. 5bn after asia - pac funding round
oxford nanopore technologies develops nanopore - based electronic systems for analyzing single molecules, including dna, rna and proteins .
oxford nanopore technologies a uk company that offers several portable realtime dnarna sequencers com ...
37. © copyright 2016 oxford nanopore technologies ⎪ 37 concurrent reads migration to monogodb3. 0
oxford nanopore technologies, an affordable dna sequencing devices supplier seeking to break the stra ...
oxford nanopore technologies wants to get your dna online, and that future is closer than you think .
oxford nanopore technologies has tapped a global syndicate of investors for $ 140 million to fuel its ...
real - time dna sequencer firm oxford nanopore technologies has raised £100m to support its next phase ...
technology focus from clive g brown, cto of oxford nanopore technologies. the minion is for research use only .
a tiny new device called the minion, developed by oxford nanopore technologies, promises to help sci ...
oxford nanopore technologies ltd is developing a new generation of nanopore - based electronic systems for analysis of single molecules, including dna, rna and proteins .
oxford nanopore technologies, facing a lawsuit from illumina, revealed that this microscopic pore, csgg, underlies its new devices .
oxford nanopore' s ceo, gordon sanghera, currently has an approval rating of 100% . oxford nanopore' s primary competitors are
oxford nanopore develops and commercializes nanopore - based dna, rna and protein molecule sensing system. oxford nanopore' s headquarters is located in oxford science park, england. for every employee, oxford nanopore generates $ 36. 7k in revenue. oxford nanopore' s latest funding round was a equity for $ 140m on mar 2018. oxford nanopore' s top competitor is pacbio, led by michael hunkapiller, who is their chairman & ceo. oxford nanopore has 205 followers on owler .
oxford nanopore develops and commercializes nanopore - based dna, rna and protein molecule sensing system. oxford nanopore was founded in 2005. oxford nanopore' s headquarters is located in oxford science park, england, gb ox4 4dq. it has raised 658. 4m i ...
oxford nanopore technologies. pcr - based, pcr - free, and rapid barcoding for minion and promethion libraries. available at: urltoken .
oxford nanopore technologies. voltrax: a rapid, programmable, portable, disposable device for sample and library preparation. available at: urltoken .
owler has collected 12 screenshots of oxford nanopore' s website since aug 2014. the latest oxford nanopore website design screenshot was captured in oct 2017 .
oxford nanopore technologies ltd. develops technologies for molecular detection and analysis in the united kingdom. the company offers base technology, a system for dna sequencing that employs nanopores to process, identify, and record dna bases in sequence. its technologies are used in dna sequencing, diagnostics, drug development, biomolecular interaction, ion channel screening, and defense applications. the company was formerly known as oxford nanolabs, ltd. and changed its name to oxford nanopore technologies ltd. in may 2008. oxford nanopore technologies ltd. was founded in 2005 and is based in kidlington, the united kingdom .
oxford nanopore technologies ltd is a private company headquartered at the oxford science park outside oxford, uk, with satellite offices in cambridge (uk), new york and boston, and personnel also based in japan and france .
oxford, england - - (business wire) - - oxford nanopore announces £70 million fundraising to support develo ...
oxford nanopore technologies was spun out from the university of oxford in 2005. until may 2008, the company was named oxford nanolabs ltd. oxford nanopore employs a team of more than 300 people including scientists, engineers, informaticians, manufacturing and commercial specialists. headquartered in oxford, uk, the company also has employees in cambridge (uk), new york and boston .
are we heading for a minion movement in healthcare? clive brown, cto of oxford nanopore technologies, talks to pharmatimes about the internet of living things .
oxford nanopore currently has 1, 779 fans on facebook. as of august 2014 oxford nanopore had 155 fans. that' s a 1047 percent increase in 4 years
© 2008 - 2018 oxford nanopore technologies. all rights reserved. registered office: gosling building, edmund halley road, oxford science park, ox4 4dq, uk | registered no. 05386273 | vat no 874 642494 | privacy policy | cookie policy | terms & conditions. oxford nanopore technologies, the wheel icon, gridion, metrichor, flongle, minion, minknow, promethion and voltrax are registered trademarks of oxford nanopore technologies limited in various countries. flongle, minion and promethion are currently for research use only .
since oxford nanopore was founded in 2005, it has participated in 11 rounds of funding. in total oxford nanopore has raised $ 658. 4m. oxford nanopore' s last funding round was on mar 2018 for a total of $ 140. 0m
oxford nanopore is organising its first conference, a two day event) on all things nanopore in london, aptly named as london calling. among the many interesting talks, the most anticipated talks is from oxford nanopore cto clive brown’s talk announcing the future things to expect from oxford nanopore .
supported by a broad patent portfolio, the university - of - oxford nanopore pipeline includes multiple generations of nanopore - based sensing technologies, including those based on both biological and solid - state nanopores .
sara goodwin of coldspring harbour laboratory talks to the oxford nanopore community at london calling .
oxford nanopore' s minion sequencer can read dna fragments up to 10 kilobases long .
oxford nanopore currently has 18, 771 followers on twitter. as of august 2014 oxford nanopore had 6, 609 followers. that' s a 184 percent increase in 3 years
the minion (aka biomolecule sequencer), a miniaturized dna sequencer, by oxford nanopore technologies is 3 ¼ × 1 ¼ × 5 / 8 inches and has a mass of 120 grams. the sequencer is powered via usb connection to a laptop or tablet and does not require a battery. image courtesy of oxford nanopore technologies .
nanopore devices can be adapted for direct sequencing of dna or rna. supported by a broad patent portfolio, the oxford nanopore pipeline includes multiple generations of nanopore - based sensing technologies, including those based on both biological and solid - state nanopores .
results from oxford nanopore' s minion are promising, but fall short of high expectations .
oxford nanopore offers a range of options for converting your original biological sample to a form ready for application into a nanopore sensing device .
in october 2013 oxford nanopore raised £40m from new and existing investors in the us and europe .
in august 2014 oxford nanopore raised £35m from new and existing investors in the us and europe .
in july 2015 oxford nanopore raised £70m from new and existing investors in the us and europe .
this study aimed to assess the feasibility of using the oxford nanopore technologies (ont) minion long - read sequencer in reconstructing fully closed plasmid sequences from eight enterobacteriaceae i ...
a sample being loaded into a flow cell attached to the minion. the minion is powered through a usb cable connected to a laptop or tablet. image courtesy of oxford nanopore technologies .
in september 2016, oxford nanopore held a technical update, announcing new product upgrades to the minion .
new york (genomeweb) – oxford nanopore technologies yesterday provided several updates on its technology development and commercialization plans, including a new minion flow cell, called flongle, for clinical diagnostic applications .
a tiny new device called the minion, developed by oxford nanopore technologies, promises to help scientists sequence dna in space. nasa' s biomolecule sequencer investigation is a technology demonstration of the device .
the oxford nanopore technologies (ont) minion is a new sequencing technology that potentially offers read lengths of tens of kilobases (kb) limited only by the length of dna molecules presented to it .
biotech firm oxford nanopore has raised £100m from its latest private funding round, valuing the rapi ...
to assess the performance of the oxford nanopore technologies minion sequencing platform, cdnas from the external rna controls consortium (ercc) rna spike - in mix were sequenced. this mix mimics mamm ...
in february 2010 oxford nanopore raised £17. 4m from existing investors and new, undisclosed us - based investors .
motivation: the highly portable oxford nanopore minion sequencer has enabled new applications of genome sequencing directly in the field .
nabsys is oxford nanopore' s # 2 rival. nabsys was founded in 2004 in providence, rhode island. nabsys operates in the health care services industry. nabsys generates $ 849. 8k more revenue than oxford nanopore .
pacbio is one of oxford nanopore' s top competitors. pacbio was founded in 2000, and its headquarters is in menlo park, california. pacbio competes in the biotechnology field. pacbio has 343 more employees than oxford nanopore .
background the minion™ is a new, portable single - molecule sequencer developed by oxford nanopore technologies. it measures four inches in length and is powered from the usb 3. 0 port of a laptop comp ...
genia is a top competitor of oxford nanopore. genia is a private company that was founded in santa clara, california in 2009. genia is in the health care services industry. genia has 83 more employees vs. oxford nanopore .
the minion is a portable single - molecule dna sequencing instrument that was released by oxford nanopore technologies in 2014, producing long sequencing reads by measuring changes in ionic flow when single - stranded dna molecules translocate through the pores .
does oxford nanopore even use mspa in its sequencers? very few people are in a position to know; oxford nanopore does not disclose the makeup of its nanopores. the company was founded on the work of hagan bayley, a biochemist at the university of oxford, whose published research has mostly concerned a different nanopore - forming protein, α - hemolysin. but many different proteins have been suggested as promising nanopore materials, and oxford could easily have changed course during the minion’s development .
the oxford nanopore technologies minion sequencer enables the selection of specific dna molecules for sequencing by reversing the driving voltage across individual nanopores. to directly select molecules for sequencing, we used dynamic time warping to match reads to reference sequences .
oxford nanopore has raised â100m ($ 140m) to expand its product range including a device for food and ...
san diego - - (business wire) - - feb. 23, 2016 - - illumina, inc. (nasdaq: ilmn) today announced that the company filed lawsuits against oxford nanopore technologies ltd. and oxford nanopore technologies, inc. (ont). the lawsuits were filed concurrently with the u. s. international trade commission and in the u. s. district court for the southern district of california. illumina is seeking all available remedies .
oxford nanopore has employees and is the third highest among it' s top 10 competitors. the top 10 competitors average 116 .
a clever combination of technologies makes it faster and more secure to buy things with a wave of your phone .
genome assemblies obtained from short read sequencing technologies are often fragmented into many contigs because of the abundance of repetitive sequences .
deamer first came up with the idea for nanopore sequencing in 1989 when he was at uc davis. at uc santa cruz, he and akeson established the nanopore research group in 1996, making important advances in nanopore sequencing technology in the subsequent decades. they both serve on oxford nanopore' s technology advisory board .
36. © copyright 2016 oxford nanopore technologies ⎪ 36 current work testing automated ansible scripts to deploy server and mongodb instances. locust to throw lots of data to deployed webserver nodes month of data in five minutes migration to 3. 0 (with wiredtiger )
13. © copyright 2016 oxford nanopore technologies ⎪ 13 usb powers device, link to laptop or computer to operate consumable flowcell contains nanopore sensing chemistry and custom electronics sample added to flowcell here. currently this is prepared dna, designed to work with blood / tissue sensor chip works with custom asic for control and data processing
asic each nanopore channel is controlled and measured individually by the bespoke asic. this allows for multiple nanopore experiments to be performed in parallel. more than one asic may be included in a device and oxford nanopore is building asics of different sizes for different purposes .
in october 2018, oxford nanopore announced its entry into the chinese market, having appointed a distributor and established its first sales to customers .
the existing sequencing technologies, and whole genome sequencing (wgs) performed mainly at centralised facilities, will become a niche .
oxford nanopore' s revenue is the third highest among it' s top 10 competitors. the top 10 competitors average $ 1. 4m .
as one of the first research institutes to take part in the minion access programme (map) for portable dna sequencing, introduced by oxford nanopore technologies, the genome analysis centre (tgac)' s task force share their experience of the ground breaking trial so far .
we report a rapid, inexpensive, and portable strategy to re - identify human dna using the minion, a miniature sequencing sensor by oxford nanopore technologies. our strategy requires only 10 - 30 minutes of minion sequencing, works with low input dna, and enables familial searches .
in june 2017, oxford nanopore launched its rna sequencing solutions. this provides the only direct, real time rna sequencing technology and additional cdna analysis .
oxford nanopore delivers continual improvement where all parts of the technology are shipped, improved and developed. the format of the hardware, software and chemistry changes on a regular basis (often over weeks rather than months). this iterative improvement process will continue throughout the lifetime of all oxford nanopore products .
glad to see oxford nanopore pushing the pace in our fair state (california). at least five promethions in the san francisco bay area alone .
a nanopore is a nano - scale hole. in its devices, oxford nanopore passes an ionic current through nanopores and measures the changes in current as biological molecules pass through the nanopore or near it. the information about the change in current can be used to identify that molecule .
a good first shot, but not a game - changer — yet. that seems to be the consensus among scientists after today' s first public release of data produced by the minion, an advanced and highly anticipated dna - sequencing device developed by uk company oxford nanopore technologies .
the talk did not seem to disappoint and clive brown announced a flurry of things to expect from oxford nanopore, minion asic, voltrax, and promethion .
* update, 11 march, 12: 35 p. m. : oxford nanopore' s response to illumina’s patent suite was added to the story .
oxford nanopore devices are fully scalable, based around a core sensing unit of a nanopore set in an arrayed sensor chip and used with a bespoke application - specific integrated circuit (asic) which controls and measures the experiments .
a nanopore is a nano - scale hole. in its devices, oxford nanopore passes an ionic current through nanopores and measures the changes in current as biological molecules pass through the nanopore or near it. the information about the change in current can be used to identify that molecule .
translating the oxford nanopore minion sequencing technology into medical microbiology requires on - going analysis that keeps pace with technological improvements to the instrument and release of associated analysis software .
in this talk i will cover the highs and lows of being part of the oxford nanopore minion access programme. our laboratory joined the map programme in may 2014 .
oxford nanopore was founded on the science of professor hagan bayley of the university of oxford. in 2008 the company created a series of collaborations with world - leading nanopore researchers at other institutions including harvard, university of california santa cruz and boston university. further collaborations have since been added; these, in combination with in - house expertise and intellectual property give the company a leading position in nanopore technology .
oxford nanopore technologies aims to disrupt the paradigm of biological analysis. our technology and commercial model has already opened up dna analysis to researchers who previously had no direct access to sequencing technologies, freeing them up to perform analyses in their own labs or in the field, and in real time. we continually improve the technology performance, make it easier to use and expand the ways in which users can access nanopore sequencing. this technology pathway is designed to enable the analysis of any living thing, by any person, in any environment .
loman is a member of the minion access programme (map) and has received free - of - charge reagents for nanopore sequencing presented in this study. he has ongoing research collaborations with oxford nanopore but does not receive financial compensation for this .
in october 2016, oxford nanopore announced that the early queue for the promethion early access programme was now full and announced transition to a more mature phase of the programme .
at this stage, oxford nanopore is not seeking additional investment. however, if you are interested in receiving information at the next opportunity then please use our contact form .
“it is gratifying, ” he said, “to have the commercial relevance of oxford nanopore products so publicly acknowledged by the market monopolist for [ next generation sequencing ]. ”
like many of oxford’s ideas, promethion is a work in progress. and it’s already well behind schedule. oxford now plans to start selling it later this year. “just sit tight, ” brown told scientists at oxford’s meeting. “the raw horsepower is enough to put you ahead. ”
clive g brown, cto of oxford nanopore, gave a technical update on 29 th september. if you missed it, you can watch it by registering your details here .
for his part, oxford nanopore ceo gordon sanghera, in a brief statement released today, said that illumina’s lawsuit is without merit and will not affect his company’s commercial prospects .
this work was funded in part by the wellcome trust, rosetrees trust, the biotechnology and biological sciences research council (bbsrc), the canadian institutes of health research, the us national science foundation, the national institutes of health and the national human genome research institute (nhgri). reagents were supplied by oxford nanopore technologies ltd .
nanopore systems will be developed that can also write dna, driving synthetic biology .
what is abundantly clear from looking through oxford’s intellectual property is that nanopore sequencing took a truly distributed effort to get off the ground. scientists from numerous universities in the us and the uk have played significant roles in bringing the world a working nanopore sequencer. so has the us government, through grants from the national human genome research institute and direct contributions from members of the national institute of standards and technologies. what oxford has done―and what illumina will have done, if it ever invents a nanopore sequencer of its own―is run the last, steepest mile, to engineer an instrument reliable enough for use in the real world .
biomolecular engineer mark akeson describes the development of nanopore sequencing technology at uc santa cruz .
oxford nanopore takes a different approach by using direct electronic sensing made possible by biological pores rather than sequencing chemistry, and could be a game changer in the field. the company was founded by
second and third generation sequencing technologies have revolutionised bacterial genomics. short - read illumina reads result in cheap but fragmented assemblies, whereas longer reads are more expensi ...
enzyme motor: e7 to e8. dna can be passed through the nanopore more rapidly, going from 250 bases per second per nanopore (bps) to 450 without losing accuracy
on 8th feb 2018, clive brown, cto of oxford nanopore, gave an update on oxford nanopore technology. in this update he described the pathway to a sub $ 1000 genome using the promethion device, introduced' flongle' - a smaller flow cell for smaller experiments and tests, outlined the pathway to very high consensus accuracy, and some other goodies. . watch for more. show less
in may 2017, r9. 5 was shipped, to be compatible with the new 1d squared method of sequencing. oxford nanopore is at this stage producing more than 20gb from a single flow cell .
npreader (jsa. np. f5reader) is a program that extracts oxford nanopore sequencing data from fast5 files, performs an initial analysis of the date and streams them to real - time analysis pipelines .
a revolution is occurring in genomic epidemiology. recently, real - time portable genome sequencing using the oxford nanopore minion device was successfully used to characterize the genetic diversity of the ebola virus outbreak in guinea .
in november 2015, minion users gathered at the first nanopore community meeting in new york .
motivation: the oxford nanopore minion sequencer, currently in pre - release testing through the minion access programme (map), promises long reads in real - time from a cheap, compact, usb device .
it is time to shake up public health surveillance. new technologies for sequencing, aided by friction - free approaches to data sharing, could have an impact on public health efforts .
the minion device by oxford nanopore is the first portable sequencing device. minion is able to produce very long reads (reads over 100 ~ kbp were reported), however it suffers from high sequencing error rate .
40. © copyright 2016 oxford nanopore technologies ⎪ 40 zika virus research urltoken • how and when zikv was introduced to brazil • pattern and determinants of spread • extent of genetic diversity (of importance to vaccine and diagnostic design), • associations between changes in the virus genome and • likelihood of zikv complications such as microcephaly. • provide a surveillance framework for tracking further spread into other geographic regions
metrichor was founded to offer fully integrated, bespoke, real - time analysis solutions based on scalable, real time nanopore sensing technologies. those complete solutions may include bespoke devices to extract a sample of interest, perform dna / rna sequencing or integrated software to provide analysis and actions .
the company now has more than 350 employees from multiple disciplines including nanopore science, molecular biology and applications, informatics, engineering, electronics, manufacturing and commercialisation. the management team, led by ceo dr gordon sanghera, has a track record of delivering disruptive technologies to the market .
illumina reserves the right to make nanopore sequencers in which dna passes through mspa or its derivatives .
motivation: the minion device by oxford nanopore is the first portable sequencing device. minion is able to produce very long reads (reads over 100 ~ kbp were reported), however it suffers from high sequencing error rate .
metrichor ltd is a company formed by oxford nanopore. it offers end - to - end analysis solutions coupled with nanopore sensing devices, with the goal of making analyses accessible to people without bioinformatics skills or even biology qualifications. this may include' applied markets' such as food / environmental testing, or future consumer genetics applications .
illumina has plenty of competitors besides oxford nanopore. but while companies like pacific biosciences, thermo fisher, and qiagen all make machines that fill useful niches, they’re just nibbling at the edges of the genomics market. oxford―despite lingering problems with accuracy, and a history of delivering spectacularly behind schedule―is the only firm that looks like it might be an existential threat .
the band of aquanauts — including members of nasa and the european space agency (esa) — participated in a 16 - day underwater expedition known as the nasa extreme environment mission operations (neemo) 21. the aquanauts first tested the palm - size minion dna sequencer, built by oxford nanopore technologies, underwater to
minimize unknowns and see how the device worked in various extreme environments ,
nasa officials said in a statement .
david deamer (left) and mark akeson (right) established the ucsc nanopore research group in 1996 .
the basic idea behind nanopore sequencing has been floating around academia since the late 1980s. scientists including david deamer and mark akeson of the university of california, santa cruz, and george church of harvard, filed a series of patents related to nanopore sequencing as early as 1995. oxford nanopore, which licenses these patents, was formed a decade later, as early prototypes in university labs began to show progress in turning the idea into a workable instrument .
24. © copyright 2016 oxford nanopore technologies ⎪ 24 sepsis 1 / 3 patients in intensive care never leave hospital deaths per year in us > 200k (more than prostate, breast cancer and aids combined). cost to us > $ 20 billion early diagnosis and evidence based treatment could è 92k fewer deaths (us) diagnosis window for septic shock: 6 hours minion being explored for early identification of infection (uti / sepsis) by uk group
brown joined oxford nanopore in june 2008, having formerly worked at the uk' s largest genomic laboratory, the wellcome trust sanger institute. he contributed to the development of more traditional dna sequencers, huge machines that cost a great deal to run, require special equipment and are centrally located in labs. nanopore sequencing, bypasses many of those problems .
this is a wondrous technical achievement by oxford nanopore and nasa. i am proud of ucsc' s key role in helping build the foundation that made it possible ,
said mark akeson, professor of biomolecular engineering at uc santa cruz .
compare: illumina has 7, 500 sequencers installed. oxford has placed 3, 000 minion (# in use currently not given) urltoken
clive brown, the company' s chief technology officer, presented the updates last night at the firm' s user meeting in london. while his talk was not public, oxford nanopore disseminated much of the information through a series of twitter messages .
in addition to studying metagenomics, the tgac map team are also interested in understanding new technologies such as the minion and providing the scientific community with tools to help them get the most out of these technologies. the research group will continue to be part of the map and will be developing this work further by looking at other research areas for the minion, with a view to paper publication, tools releases, collaborations and grant applications .
two weeks ago i mentioned on twitter that i pushed a large series of changes to support r9 oxford nanopore data in nanopolish. i promised a blog post describing the changes then went off on my summer vacation - here it is, a little late .
in february 2012 at the agbt conference, oxford nanopore presented a variety of nanopore dna' strand sequencing' and protein - analysis data, and an overview of the hardware and software behind the gridion and minion systems. these data included small genomes that had been sequenced using the company' s technology over the sense and antisense strands, showing tens of kilobases in single reads. this was the first nanopore sequence data to be shown worldwide since the technique was first theoretically proposed in 1996 .
the recently introduced oxford nanopore minion platform generates dna sequence data in real - time. this opens immense potential to shorten the sample - to - results time and is likely to lead to enormous benefits in rapid diagnosis of bacterial infection and identification of drug resistance .
“this reminds me of the early days of illumina, when all we could get were 36 - base - pair reads, and we were all very excited about that, ” says erlich. “i think we should give [ oxford nanopore ] more time. ”
nanopore reader: r9 to r9. 4. 1200 r9 mutants have been screened; this is faster and more accurate
hi fabricio, the minion is made by oxford nanopore – urltoken in this study, researchers in several labs around the world tested out the performance of the device. embl - ebi coordinated the study, but we do not distribute the device. kind regards, mary
oxford nanopore provides signal processing and base - calling tools, but file formats are documented and participants can write their own data analysis tools or modify the scripts provided in the github repository. sources for any software are provided on an ‘as - is’ and ‘without warranties’ basis
the top 10 competitors in oxford nanopore' s competitive set are pacbio, nabsys, genia, illumina, quantumdx, discoverx, diagenode, editas medicine, integenx and applied biosystems. together they have raised over 1. 0b between their estimated 7. 2k employees .
more recently, in 2013 illumina licensed patents from jens gundlach of the university of washington and michael niederweis of the university of alabama, birmingham, to pursue an in - house nanopore program. it is these patents that are now the object of illumina’s lawsuit against oxford .
bywaters kf, mckay cp, davila af, quinn rc. in situ life and biosignature detection at mars analog sites using the oxford nanopore minion sequencer. biosignature preservation and detection in mars analog environments conference. may 16–18, 2016; no. 1912, id 2014 .
in july 2009, the company relocated to the oxford science park. our premises at edmund cartwright house were inaugurated by the uk science and innovation minister, lord drayson. in 2011, an additional 7, 000 square feet on the oxford science park was opened and a new cambridge office was also opened .
the convergence of automation technologies, intelligent algorithms and cloud computing is progressively making genomics available to less skilled actors. while this does not necessarily ensure democratization, it does enable us to imagine it. and so, what if it actually happens ?
array of microscaffolds each microscaffold supports a membrane and embedded nanopore. the array keeps the multiple nanopores stable during shipping and usage .
dr andrew kilianski presents a talk for the minion community on real - time genomic characterization of viral threat agents using nanopore sequencing .
the suit came as distressing news to some researchers, who feared they might lose access to the firm’s nanopore products, or that the battle would stifle the development of new platforms. “i would love it if illumina had released a platform. instead what they’re doing is releasing a lawsuit, ” says winston timp, a biomedical engineer at johns hopkins university in baltimore, maryland, whose lab has also licensed patents to oxford nanopore .
oxford nanopore has developed voltrax – a small device designed to perform library preparation automatically, so that a user can get a biological sample ready for analysis, hands - free. voltrax is designed as an alternative to a range of lab equipment, to allow consistent and varied, automated library prep options .
if the ambition is to promote more distributed use of genomic sequencing, users also need a ready - made platform for interpreting genetic data. oxford nanopore has designed an intelligent cloud lab, metrichor, to be used for genomics data storage in conjunction with smartphone apps that interpret the meaning of dna sequences .
nanopore devices perform dna / rna sequencing directly and in real time. the technology is scalable from miniature devices to high - throughput installations .
people will develop and commercialise their own assays on the nanopore platform, for their own applications, rather like programming a new iphone app .
other researchers will soon have a chance to form their own opinions about the device, as oxford nanopore today launched its early - access programme. researchers who pay a us $ 1, 000 deposit, plus $ 250 for shipping costs, can receive their own minions to begin testing the machines in their labs .
even if oxford does have mspa - based nanopores inside the minion and promethion, illumina’s lawsuit is far from a slam dunk. oxford holds or licenses a wide array of intellectual property―some from its co - founder bayley, but also from deamer, akeson, church, and many others. these patents cover the foundational concept of nanopore sequencing; the engineering of protein nanopores; and other aspects of the technology not at stake here, like the enzymes that help guide dna through the system .
antonio regalado on twitter :
compare: illumina has 7, 500 sequencers installed. oxford has placed 3, 000 minion (# in use currently not given) …
in nanopore sensing, just as water flows through a drain, an ionic current flows through a nanopore. when molecules pass through the hole the current is disrupted in characteristic ways, similar to the way the water flow would change if you placed objects in the drain credits: urltoken
nanopore sequencing is an ideal example of how academic scientists can collaborate with businesses to develop new instruments with unprecedented capabilities ,
deamer said .
clive brown, who led the development of the minion at oxford, suggested that it will make possible an internet of living things. that sounds right to me .
average read length almost 7kb. 330mb events and 46k reads in 3. 5 hours and still going well. excellent work @ nanopore! !
yes expected, main reason is error in nanopore data, other is this is a clinical isolate and we don' t have a reference .
these “nanopore” techniques, originally proposed by hagan bayley, a professor of chemistry at oxford, in 1992, are simple, at least in principle. they do not need fluorescent labels and will probably not require amplification, either. they can “read” dna directly and rapidly, and are cheap enough to replicate in vast numbers .
thanks to matei david, jonathan dursi, nick loman, josh quick and phil zuzarte for helping develop the r9 support and generating data. the scientists at oxford nanopore helped us better understand r9 data and the discussions we had with them were key to implementing the improved hmm - thanks in particular to clive and chris wright .
a review of the nanopore technology platform, which is designed to enable the analysis of any living thing, by any person, in any environment .
the minion, a handheld dna - sequencing device developed by oxford nanopore, has been tested and evaluated by an independent, international consortium coordinated by embl - ebi. the innovative device opens up new possibilities for using sequencing technology in the field, for example in tracking disease outbreaks, testing packaged food or the trafficking of protected species .
metrichor ltd offers end to end analysis solutions, using real - time, miniaturisable and scalable dna / rna sequencing technology from oxford nanopore. designed for real time surveillance of complex systems such as food supply chains, environments or outbreaks, to single locations such as industrial or medical diagnostics, metrichor can design bespoke solutions for rapid insights .
in may 2015, the first nanopore sensing conference was convened (london calling) where users of minion technology gathered to hear from 20 speakers and additional abstracts from numerous other map participants across a range of applications. minion became commercially available at this time and the minion access programme became the nanopore community .
the dna sample (metagenomics gdna from lake hillier xmp project) was sheared to 10 kb size using a covaris g - tube (figure 2d, supplementary figure 4). dna was then prepared using the oxford nanopore r9 protocol (version nsk - 007), including ffpe repair, end repair and da - tailing, adapter ligation and tethering, and streptavidin recovery. the prepared library was run on an r9 minion flowcell using minknow version 0. 51. 1. 66 with the “nc _ 48hr _ sequencing _ run _ flo _ min104. py” protocol. the raw data were called with metrichor using “2d basecalling rnn for sqk - nsk007” version 1. 99 (oxford science park, oxford, uk) .
minion™ is a memory stick - sized, nanopore - based sequencer primarily designed for single - molecule sequencing of long dna fragments (> 6 kb) .
a webcast presentation today for customers of the company will likely put many of those fears to rest. oxford nanopore’s chief technology officer clive brown announced an upgrade to its devices—a new pore the company has been describing in presentations as r9. brown revealed that r9 is csgg, a membrane protein derived from escherichia coli, but present in many bacterial species .
and it’s not all about dna. bayley says oxford nanopore was founded as a company interested in developing single molecule sensing technology for metabolites, sugars and other compounds of biochemical interest .
we saw it as a platform technology. but quite soon it became obvious that its application in third - generation dna sequencing was an area with enormous potential .
whether illumina is narrowing in on its own nanopore sequencer is a mystery. the company did receive a 2014 grant from the national human genome research institute related to a nanopore project; this seems to be the most recent public evidence that the program is active. it is suggestive that illumina has recently been touting a
“nanopore sequencing will open the door for the development of novel tools and applications to analyse the influx of new data, ” says rebecca lawrence, managing director of f1000research. “the nanopore analysis channel on f1000research will be a central, open platform on which scientists can publish and discuss new applications and analyse workflows for nanopore sequencing data. people can access and contribute data easily, so that the wider life - science community can realise the full potential of this new technology quickly. ”
we provide the latest information on how to use the products via the nanopore community website, which also serves as a forum for minion users to share information .
eleonore pauwels is a writer and international science policy expert, who specializes in the governance of converging technologies, including artificial intelligence, genomics, digital bio - engineering, participatory health design, and citizen science. at the wilson center, she is the director of the ai lab within the science and technology innovation program .
in may 2016, the minion mk 1b was introduced. preparing for future iterations of nanopore chemistry it included improvements such as greater temperature control of the flow cell .
minion was launched into the minion access programme in spring 2014 and made commercially available in may 2015. the nanopore community has grown around the two phases of minion availability .
a strand of dna is passed through a nanopore. the current is changed as the bases g, a, t and c pass through the pore in different combinations .
in the case of oxford nanopore' s technology, the dna molecule is fed through the hole one base at a time by a second protein, an enzyme called an exonuclease. this can clearly distinguish the four dna letters, a, c, g and t. it may also be able to detect whether a letter is methylated, though this has not yet been independently verified .
jaqueline goes de jesus of the oswaldo cruz foundation and nuno faria of the university of oxford use the minion sequencer in joão ­pessoa, brazil, as part of a mobile study on the origins of the zika virus .
the desk in gordon sanghera' s office at oxford nanopore proudly displays a piece of knobbly plastic. it has a hole running through it and looks rather like a cruller doughnut, though with grey icing. in fact, it is a model of a protein molecule called alpha - hemolysin. dr sanghera, the firm' s boss, believes this molecule will revolutionise the sequencing of dna .
nanopolish for @ nanopore r9 data has been released. consensus accuracy is up to 99. 9% (deep e. coli data). details in a upcoming blog post
nanopore dna strand sequencing has emerged as a competitive, portable technology. reads exceeding 150 kilobases have been achieved, as have in - field detection and analysis of clinical pathogens .
but isaac ro, an analyst at us investment bank goldman sachs — which advised illumina in 2012 when it fought off a takeover bid by the swiss drug giant roche — called jaffe' s presentation “underwhelming”. “oxford nanopore still appears to be in development mode and, in our view, is unlikely to threaten [ illumina’s ] competitive position at this time, ” ro said in a research note .
in december 2016, the second nanopore community meeting was held. during this meeting, three groups presented or released t he first human genomes to be sequenced on the handheld minion .
... and now for something completely different. new tools for diet analyses: nanopore sequencing of metagenomic dna from stomach contents to quantify diet in an invasive population of rats with
the fundamental research and patents underlying the technology of nanopore sequencing were carried out here at ucsc ,
said david deamer, research professor of biomolecular engineering at uc santa cruz .
i have received an honorarium to speak at an oxford nanopore meeting, and travel and accommodation to attend london calling 2015 and 2016. i have ongoing research collaborations with ont although i am not financially compensated for this and hold no stocks, shares or options. ont have supplied free - of - charge reagents as part of the minion access programme and also generously supported our infectious disease surveillance projects with reagents .
we are sending up samples that we are preparing on the ground, and the crew will thaw the samples and load them for sequencing. the samples will contain lambda bacteriophage, which is oxford nanopore technology' s characterization standard for sequencer performance. the samples will also contain e. coli and mouse genomic dna to demonstrate that you could sequence dna from any organism. the samples will not contain human dna .
in february 2017, the gridion x5 was announced; a desktop system integrating five minion flow cells with integrated compute function, that can be used to offer nanopore sequencing as a service .
a protein nanopore is set in an electrically resistant polymer membrane. an ionic current is passed through the nanopore by setting a voltage across this membrane. if an analyte passes through the pore or near its aperture, this event creates a characteristic disruption in current (as shown in the diagram below). measurement of that current makes it possible to identify the molecule in question .
nanopore sequencing introduces true real - time sequencing for the first time. full exploitation of real - time sequencing requires a novel approach to data analysis for which we have developed the minotour platform .
the average length of the sequences generated on the minion is 5. 4 kilobases, with some as long as 10 kilobases. that is longer than the average read out delivered by the current dominant sequencing technology, sold by illumina of san diego, california, which delivers fragments of dna that are hundreds of base pairs long. but the median length of the minion’s reads is shorter than the target that oxford nanopore announced in 2012 .
all those activities might one day be run instead using nanopore sequencing — or at least oxford hopes so. right now, the minion is a good way to identify and study bacteria and viruses. but last year, the first human genomes were sequenced on a minion as well. (it’s still a cumbersome process and not as inexpensive, however — taking close to $ 20, 000 worth of disposable cartridges at $ 500 each. )
30hrs, ~ 14gb and 450 in strand with 1263 active pores still. loving these new revd flowcells. home it came today so i can nurture it along over the weekend. @ nanopore urltoken
the minion is not yet for sale. but david jaffe, a computational biologist at the broad institute in cambridge, massachusetts, used data produced by the device and provided by oxford nanopore to aid in the assembly of two bacterial genomes — those of escherichia coli and a bacterium from the genus scardovia that is found in the human mouth. he presented his results today at the advances in genome biology and technology meeting in marco island, florida .
illumina is improving human health by unlocking the power of the genome. our focus on innovation has established us as the global leader in dna sequencing and array - based technologies, serving customers in the research, clinical and applied markets. our products are used for applications in the life sciences, oncology, reproductive health, agriculture and other emerging segments. to learn more, visit urltoken and follow @ illumina .
last month, josh quick, a bioinformatician and phd student working in my group at the institute of microbiology and infection, travelled to the epicentre of the outbreak in guinea. he took with him a portable genomic surveillance system carried in his hold luggage. the system contained several minions: portable “usb stick” sequencers, developed by the british company oxford nanopore, as well as all the chemicals and pipettes and plastic tubes that are needed to generate sequences of the ebola virus .
even closer to home, genome sequencing is becoming mainstream with the 100, 000 genomes project. and armed with new technologies, it may soon be possible for individuals to sequence their own genomes and for infectious pathogens to be sequenced at home or in a gp surgery. when it comes to ebola, we hope the ability to provide portable, real - time sequencing will improve our ability to respond in future .
so that we can open up the use of nanopore analysis by any person and in any environment, we are developing a low cost consumable device for combined sample and library preparation. project zumbador is progressing well .
in my talk, i will discuss my collaboration with nick loman’s lab to develop de novo assembly methods for minion data. we have built a pipeline to error correct nanopore reads using partial order gr ...
jared simpson on twitter :
nanopolish for @ nanopore r9 data has been released. consensus accuracy is up to 99. 9% (deep e. coli data). details in a upcoming blog post
but he sounded optimistic about the minion' s future. oxford nanopore has said that higher - quality dna or different preparation methods should increase the average read length. jaffe says that the company can work to eliminate errors, perhaps by using a variety of pores with different properties. but even now, he says, most long minion reads had lengthy stretches without any mistakes. the systematic errors are “a temporary feature that we hope they' ll figure out how to solve”.
oxford nanopore technologies limited is a u.k.-based company which is developing and selling nanopore sequencing products ( including the portable dna sequencer , minion ) for the direct , electronic analysis of single molecules . 
oxford nanopore technologies limited is a u.k.-based company which is developing and selling nanopore sequencing products (including the portable dna sequencer, minion) for the direct, electronic analysis of single molecules.
oxford nanopore technologies limited is a u.k.-based company which is developing and selling nanopore sequencing products (including the portable dna sequencer, minion) for the direct, electronic analysis of single molecules.