(Q28529647)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

title

Plasmodium malariae and P. ovale genomes provide insights into malaria parasite evolution (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

sponsor

Medical Research Council

0 references

0 references

0 references

0 references

0 references

0 references

10

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Gavin G Rutledge

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Ulrike Böhme

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Adam J Reid

4

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

James A. Cotton

5

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Oumou Maïga-Ascofaré

6

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Sarah Auburn

16

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Richard Price

17

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

James S McCarthy

18

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Dominic P. Kwiatkowski

19

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Chris Newbold

20

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Thomas D Otto

22

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

7

Abdoulaye A Djimdé

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

12

François Renaud

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

11

John W Barnwell

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

9

Lucas Amenga-Etego

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

Tobias Obejum Apinjoh

8

object named as

Tobias O Apinjoh

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

15

Nicholas M Anstey

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

13

Benjamin Ollomo

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

3

Mandy Sanders

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

21

Matthew Berriman

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

author name string

Franck Prugnolle

14

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

language of work or name

English

0 references

publication date

25 January 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

full work available at URL

10 April 2020

http://www.nature.com/nature/journal/vaop/ncurrent/pdf/nature21038.pdf

0 references

published in

Nature

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

volume

542

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

page(s)

101-104

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

issue

7639

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

Creative Commons Attribution 4.0 International

10 April 2020

copyright license

start time

25 January 2017

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

describes a project that uses

RStudio

1 reference

18 June 2022

https://europepmc.org/article/PMC/5326575

based on heuristic

inferred from PubMed Central ID database lookup

cites work

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1 reference

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A new method for estimating species age supports the coexistence of malaria parasites and their Mammalian hosts

19 March 2017

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Rfam 12.0: updates to the RNA families database

19 March 2017

1 reference

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A comprehensive evaluation of rodent malaria parasite genomes and gene expression

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

The common marmoset genome provides insight into primate biology and evolution

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

An observational study of malaria in British travellers: Plasmodium ovale wallikeri and Plasmodium ovale curtisi differ significantly in the duration of latency

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Fast gapped-read alignment with Bowtie 2

19 March 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Basigin is a receptor essential for erythrocyte invasion by Plasmodium falciparum

19 March 2017

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Bayesian inference of ancient human demography from individual genome sequences

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

The Genome Analysis Toolkit: A MapReduce framework for analyzing next-generation DNA sequencing data

19 March 2017

1 reference

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New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0

19 March 2017

1 reference

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The Sequence Alignment/Map format and SAMtools

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Fast statistical alignment

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

A new malaria agent in African hominids

19 March 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

A rapid bootstrap algorithm for the RAxML Web servers

19 March 2017

1 reference

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The genome of the simian and human malaria parasite Plasmodium knowlesi

19 March 2017

1 reference

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Comparative genomics of the neglected human malaria parasite Plasmodium vivax

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

I-TASSER server for protein 3D structure prediction

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Initial sequence of the chimpanzee genome and comparison with the human genome

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

TM-align: a protein structure alignment algorithm based on the TM-score

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

MUSCLE: multiple sequence alignment with high accuracy and high throughput

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Genome sequence of the human malaria parasite Plasmodium falciparum

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

An efficient algorithm for large-scale detection of protein families

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Artemis: sequence visualization and annotation

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

PhyloBayes 3: a Bayesian software package for phylogenetic reconstruction and molecular dating

19 March 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Scaffolding pre-assembled contigs using SSPACE

7 April 2017

1 reference

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ACT: the Artemis Comparison Tool

7 April 2017

1 reference

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Identification and genome-wide prediction of DNA binding specificities for the ApiAP2 family of regulators from the malaria parasite

7 April 2017

1 reference

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Variant Exported Blood-Stage Proteins Encoded by Plasmodium Multigene Families Are Expressed in Liver Stages Where They Are Exported into the Parasitophorous Vacuole

24 May 2017

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Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data

24 May 2017

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Genome-scale comparison of expanded gene families in Plasmodium ovale wallikeri and Plasmodium ovale curtisi with Plasmodium malariae and with other Plasmodium species

24 May 2017

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Companion: a web server for annotation and analysis of parasite genomes

29 September 2017

1 reference

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Genomes of cryptic chimpanzee Plasmodium species reveal key evolutionary events leading to human malaria.

29 September 2017

1 reference

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Structurally conserved erythrocyte-binding domain in Plasmodium provides a versatile scaffold for alternate receptor engagement

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Natural infection of Plasmodium brasilianum in humans: Man and monkey share quartan malaria parasites in the Venezuelan Amazon

29 September 2017

1 reference

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Modeling malaria genomics reveals transmission decline and rebound in Senegal

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

The I-TASSER Suite: protein structure and function prediction.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Generation of antigenic diversity in Plasmodium falciparum by structured rearrangement of Var genes during mitosis

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

K13-propeller polymorphisms in plasmodium falciparum parasites from sub-saharan Africa

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Optimized whole-genome amplification strategy for extremely AT-biased template

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Genome sequencing of chimpanzee malaria parasites reveals possible pathways of adaptation to human hosts.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

The ears of the African elephant: unexpected high seroprevalence of Plasmodium ovale and Plasmodium malariae in healthy populations in Western Africa

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

High diversity of West African bat malaria parasites and a tight link with rodent Plasmodium taxa.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

The MaSuRCA genome assembler

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

GapFiller: a de novo assembly approach to fill the gap within paired reads

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Plasmodium cynomolgi genome sequences provide insight into Plasmodium vivax and the monkey malaria clade

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Directional gene expression and antisense transcripts in sexual and asexual stages of Plasmodium falciparum

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

An effective method to purify Plasmodium falciparum DNA directly from clinical blood samples for whole genome high-throughput sequencing

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Two nonrecombining sympatric forms of the human malaria parasite Plasmodium ovale occur globally

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Adaptive gene expression divergence inferred from population genomics

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Plasmodium malariae: parasite and disease

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Template-based modeling and free modeling by I-TASSER in CASP7.

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

AUGUSTUS: ab initio prediction of alternative transcripts

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Plasmodium ovale: parasite and disease

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

The K(A)/K(S) ratio test for assessing the protein-coding potential of genomic regions: an empirical and simulation study

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Inferring the evolutionary histories of the Adh and Adh-dup loci in Drosophila melanogaster from patterns of polymorphism and divergence

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Streaming fragment assignment for real-time analysis of sequencing experiments

29 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

RATT: Rapid Annotation Transfer Tool

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

ABACAS: algorithm-based automatic contiguation of assembled sequences

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Modified Hudson-Kreitman-Aguade test and two-dimensional evaluation of neutrality tests

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Plasmodium brasilianum in the common marmoset Callithrix jacchus.

2 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

Asymptomatic malaria infections: detectability, transmissibility and public health relevance

2 June 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE21038

The Plasmodium apicoplast genome: conserved structure and close relationship of P. ovale to rodent malaria parasites.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE21038

Graph drawing by force-directed placement

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE21038

Improved Protocols for Illumina Sequencing

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5326575

A fast and symmetric DUST implementation to mask low-complexity DNA sequences

27 November 2018

1 reference

https://api.crossref.org/works/10.1038%2FNATURE21038

inferred from DOI database lookup

7 January 2021

based on heuristic

Studying the co-evolution of protein families with the Mirrortree web server

1 reference

https://api.crossref.org/works/10.1038%2FNATURE21038

inferred from DOI database lookup

7 January 2021

based on heuristic

Identifiers

DOI

10.1038/NATURE21038

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

10 April 2020

0 references

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28117441%20AND%20SRC:MED&resulttype=core&format=json

10 April 2020

1 reference