Sentences with phrase «snp calling»

As the gold standard for all four samples we used SNPs found by Affymetrix SNP6 arrays as an independent and well - established SNP calling technology (see Figure S10 and Figure S11 for an overview on the distribution of array SNPs in different regions of the genome).

Further, we explicitly did not include a comparison of different methods for alignment and for SNP calling in this study.

The reference bias is present not only in expression profiling, but also in SNP calling.

Parameters tested while optimizing samtools mpileup based SNP calling.

Sequence coverage in regions immediately flanking our hybridization targets was in several cases higher than 8X, therefore, we extended SNP calling to 250 bp of flanking sequence in all targets.

In my talk I will discuss my group's efforts to address these analysis challenges through modeling the electric current signal, leading to software for improved consensus calling, SNP calling and detecting base modifications like 5 - methylcytosine.

Read mapping and SNP calling were conducted as described (Huang et al., 2017).

Genotype and SNP calling from next - generation sequencing data.

Genotype and SNP calling from next - generation sequencing data Nielsen, R., J. S. Paul, A. Albrechtsen, and Y. S. Song.

SNP calling, genotype calling, and sample allele frequency estimation from new - generation sequencing data Nielsen, R. T. Korneliussen, A. Albrechtsen, Y. Li et al. 2012.

On the doorstep, he said, people in England were voting Green, and in Scotland going over to the SNP, with the SNP calling Labour «Red Tories».

In the wake of the Brexit result the SNP called for a second independence referendum.

Scotland is being given what Lord Smith described as «full powers over all programmes to help people back into work», but it does not get what the SNP calls «job - creating powers», nor control over the minimum wage.

The Conservatives and SNP called a vote of no - confidence in the Callaghan government, which lost by one vote, forcing (a few weeks early) the 1979 General Election that brought Margaret Thatcher to power, and killed Scottish devolution for 18 years.

Fiscal autonomy - which is what the SNP called for - would mean that they would have to deliver over # 7 billion deeper spending cuts or tax rises in Scotland than under the Tory plans.

Mike Weir of the SNP called it «ridiculous» and Green party MP Caroline Lucas branded it «an attempt by the government to get rid of social housing».

During the emergency debate the SNP called on Prime Minister David Cameron to «think again» about proposals with MP Pete Wishart describing the plans as «nothing less than a constitutional outrage».

This analysis revealed that a SNP called rs9349379, located hundreds of kilobases away, was the strongest risk factor for cardiovascular disease at chromosome 6p24.

Next, we inferred patterns of population splits using TreeMix applied to the genome - wide polymorphisms identified in our dataset, representing ∼ 4,200,000 SNPs called for each sample.

Complete Genomics also has an open source tools package, Complete Genomics Analysis Tools (CGATM Tools), for downstream analysis of Complete Genomics data such as performing comparisons of SNP calls between two samples.

I won't ruin the whole story for you, but suffice it to say that most of the SNPs called by VarScan in the 454 sequencing were present in dbSNP or supported by VarScan's Illumina / Solexa calls, or both.

The SNP calls by the SNP6 array were compared based on the genotype level.

We are able to call 22 million high quality single nucleotide polymorphisms (SNP) from the nuclear genome, representing the largest SNP call set from an East Asian population to date.

deCODE discovered the first variant, a SNP called rs 401681, in its gene discovery work on basal cell carcinoma (BCC), a common form of skin cancer.

For validation of SNP calls with an independent technology, Affymetrix SNP 6 arrays were hybridized and analyzed as previously described [18].

The SNP calls for each of the data sets (except for Complete Genomics data) were optimized using the described combinations and the calls providing the strongest overlap with the Affymetrix SNP6 based SNP calls were selected.

To evaluate the power of association mapping by homozygosity, we analyzed genotype calls from just the 20 affected dogs (59,408 SNP calls from autosomal chromosomes) to identify homozygosity blocks greater than 1.0 Mb.

Not exact matches

One of the tools, the SNP - Seek database, is designed to provide user - friendly access to a type of genetic marker called single nucleotide polymorphisms (SNPs) identified from this data.

Alison Thewliss (Glasgow Central)(SNP): Ministers will be aware of The Lancet series on breastfeeding and the open letter signed today by a range of organisations in the field calling for concerted action to promote, protect and support breastfeeding.

Alison Thewliss SNP MP for Glasgow Central made a great speech in the House of Commons today (16 November 2016) calling for stricter regulations to control the marketing of formulas for babies.

SNP's Alison Thewliss calls for legislation to tackle loophole allowing publication of «scientifically questionable» claims

Natera uses a SNP microarray from Ilumina with a proprietary technology called Parental Support ™, which tests all 24 chromosomes and delivers results that are typically > 99 % accurate.

But in opting for what many observers (even sympathetic ones) have called a «timid» approach to income tax, the SNP has also essentially repudiated a lot of its previous attack lines, not least the regular cry that Labour are little more than «Red Tories», although a lady in the audience last night had a go by referring to «ScotLab Tories».

He called the government a «coalition of chaos» - a term the Conservatives once used to describe a potential pact between Labour, the SNP, and the Greens, and he spoke of the «shambles» that Brexit negotiations have become.

Labour MP Dennis Canavan was not allowed to call SNP politician Donald Stewart a traitor in 1976.

Also writing on Twitter, the SNP's Pete Wishart said that Oldman was «amazing as Churchill» and Tory MP Tim Loughton called it a «fantastic performance».

The Labour, SNP and Liberal Democrat front benches have all voiced serious concerns about the humanitarian situation in Yemen and called for an immediate suspension of arms sales.

The SNP are calling for both the new fees for medical students and the «back - end» graduate endowment system to be scrapped.

Similarly, an attempt by John Swinney, the dry - as - dust education secretary, to rebut recent internal criticism that the Scottish government lacks a radical edge amounted to little more than claiming the SNP sat «firmly astride Scotland's social democratic centre», while elsewhere he said the currency proposition won't «necessarily» have to be any different from that offered up in 2014, a so - called «currency union».

This is something the SNP have been calling for and it's believed other senior Labour figures are sympathetic to the idea.

The «sweetest victory» of the Conservatives, as David Cameron put it on May 8th, and the sweeping landslide victory of the SNP, winning all but three of the Scottish seats, were indeed shocking wake - up calls for all those concerned about British politics.

Politicians from the Conservatives, Greens, Labour, Liberal Democrats, Plaid Cymru, SNP and UKIP all sang the praises of the Citizens» Assemblies and called for more public participation in politics.

As with the Tories Labour would also call on the DUP and Liberal Democrats first if those parties were sufficient to yield a majority, on the basis that the SNP will be harder for Labour to do a deal with, especially given their differences over Trident.

The recent «vow plus» call by Jim Murphy and Gordon Brown for greater devolution of welfare benefits speaks to both the nationalist and socialist concerns of the Labour to SNP defectors.

Although she's repeatedly called for the SNP leader to take indyref2 off the table, of course she didn't mean it, for that would rob her of a salient attack line up to and including the 2021 Holyrood election.

A significant swing to the SNP in Scotland could see the nationalists gain power, but with many seats yet to declare and scores of spoilt ballot papers, the result is still too close to call.

Indeed, Labour and the SNP joined forces in arguing that Mrs May is prioritising party political interests over those of the country with this election call.

A great many of those who signed up to the SNP after the referendum did so on the basis that they expected the party to call a second vote on the UK's constitutional future sooner rather than later.

The Liberal Democrats oppose a like - for - like replacement of Trident, the SNP is committed to a Scotland free of nuclear weapons, Plaid Cymru and the Green party call for Trident to be scrapped, the Conservatives and Ukip support retaining Trident, while Labour appears to have no explicit policy.

He criticised calls for independence as «a gamble», adding: «The SNP don't know what independence will mean for Scotland.