An evolutionary analysis of antigen processing and presentation across different timescales reveals pervasive selection (Q35133190)

6 August 2017

An evolutionary analysis of antigen processing and presentation across different timescales reveals pervasive selection (English)

1 reference

6 August 2017

1

1 reference

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11 June 2020

Rachele Cagliani

2

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11 June 2020

Uberto Pozzoli

4

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11 June 2020

Mara Biasin

10

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11 June 2020

Giacomo P Comi

13

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11 June 2020

Nereo Bresolin

14

1 reference

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11 June 2020

Mario Clerici

15

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11 June 2020

Manuela Sironi

16

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11 June 2020

3

Claudia Tresoldi

1 reference

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11 June 2020

5

Luca De Gioia

1 reference

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11 June 2020

8

Giorgia Menozzi

1 reference

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11 June 2020

9

Marta Colleoni

1 reference

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11 June 2020

author name string

Giulia Filippi

6

1 reference

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11 June 2020

Stefania Riva

7

1 reference

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11 June 2020

Sergio Lo Caputo

11

1 reference

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11 June 2020

Francesco Mazzotta

12

1 reference

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11 June 2020

language of work or name

1 reference

27 March 2014

1 reference

6 August 2017

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24675550%20AND%20SRC:MED&resulttype=core&format=json

11 June 2020

volume

10

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11 June 2020

issue

3

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24675550%20AND%20SRC:MED&resulttype=core&format=json

11 June 2020

page(s)

e1004189

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Creative Commons Attribution 4.0 International

11 June 2020

copyright license

start time

27 March 2014

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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28 July 2018

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Localizing recent adaptive evolution in the human genome

28 July 2018

1 reference

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28 July 2018

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Langerin is a natural barrier to HIV-1 transmission by Langerhans cells

28 July 2018

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Statistical tests for detecting positive selection by utilizing high-frequency variants

28 July 2018

1 reference

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Reconstructing human origins in the genomic era

28 July 2018

1 reference

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Genomic signatures of positive selection in humans and the limits of outlier approaches

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Positive natural selection in the human lineage

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Balancing selection and its effects on sequences in nearby genome regions

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

A map of recent positive selection in the human genome

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Membrane topology of the transporter associated with antigen processing (TAP1) within an assembled functional peptide-loading complex

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Calibrating a coalescent simulation of human genome sequence variation

28 July 2018

1 reference

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Microcephalin, a Gene Regulating Brain Size, Continues to Evolve Adaptively in Humans

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Direct recognition by alphabeta cytolytic T cells of Hfe, a MHC class Ib molecule without antigen-presenting function.

28 July 2018

1 reference

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The FoldX web server: an online force field

28 July 2018

1 reference

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I-Mutant2.0: predicting stability changes upon mutation from the protein sequence or structure

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

A scan for positively selected genes in the genomes of humans and chimpanzees

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Not so different after all: a comparison of methods for detecting amino acid sites under selection

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Accounting for decay of linkage disequilibrium in haplotype inference and missing-data imputation

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Bayes empirical bayes inference of amino acid sites under positive selection

28 July 2018

1 reference

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The HKA test revisited: a maximum-likelihood-ratio test of the standard neutral model

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Localization of Nox2 N-terminus using polyclonal antipeptide antibodies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

NOX enzymes and the biology of reactive oxygen

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Functional dissection of the transmembrane domains of the transporter associated with antigen processing (TAP).

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Libsequence: a C++ class library for evolutionary genetic analysis.

28 July 2018

1 reference

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Effect of recombination on the accuracy of the likelihood method for detecting positive selection at amino acid sites.

28 July 2018

1 reference

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Multistep autoactivation of asparaginyl endopeptidase in vitro and in vivo

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Estimation of divergence times for major lineages of primate species

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

The mannose-dependent epitope for neutralizing antibody 2G12 on human immunodeficiency virus type 1 glycoprotein gp120.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Killing activity of neutrophils is mediated through activation of proteases by K+ flux

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Two-locus sampling distributions and their application

28 July 2018

1 reference

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A New Statistical Method for Haplotype Reconstruction from Population Data

28 July 2018

1 reference

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Recent common ancestry of human Y chromosomes: evidence from DNA sequence data

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Median-joining networks for inferring intraspecific phylogenies

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Analysis of glycosylation sites on gp91phox, the flavocytochrome of the NADPH oxidase, by site-directed mutagenesis and translation in vitro

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Multiple regions of the transporter associated with antigen processing (TAP) contribute to its peptide binding site

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Resistance to HIV-1 infection among persistently seronegative prostitutes in Nairobi, Kenya

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Resistance to HIV-1 infection in caucasian individuals bearing mutant alleles of the CCR-5 chemokine receptor gene

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

BLH1 codes for a yeast thiol aminopeptidase, the equivalent of mammalian bleomycin hydrolase.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Selectivity of MHC-encoded peptide transporters from human, mouse and rat

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Sampling theory for neutral alleles in a varying environment.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Statistical method for testing the neutral mutation hypothesis by DNA polymorphism

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Cloning the gene for an inherited human disorder--chronic granulomatous disease--on the basis of its chromosomal location

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

On the number of segregating sites in genetical models without recombination

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Mathematical model for studying genetic variation in terms of restriction endonucleases

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Evaluation of an improved branch-site likelihood method for detecting positive selection at the molecular level

28 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Trimeric Structure of Langerin

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

A lack of Birbeck granules in Langerhans cells is associated with a naturally occurring point mutation in the human Langerin gene

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Insights into MHC Class I Peptide Loading from the Structure of the Tapasin-ERp57 Thiol Oxidoreductase Heterodimer

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

A novel, potent dual inhibitor of the leukocyte proteases cathepsin G and chymase: molecular mechanisms and anti-inflammatory activity in vivo

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Regulation of insulin-regulated membrane aminopeptidase activity by its C-terminal domain.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Crystal structure of human thimet oligopeptidase provides insight into substrate recognition, regulation, and localization

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Genetical structure of populations

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

A new approach for using genome scans to detect recent positive selection in the human genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

NA-Seq: a discovery tool for the analysis of chromatin structure and dynamics during differentiation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

A cross-platform analysis of 14,177 expression quantitative trait loci derived from lymphoblastoid cell lines

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

A practical genome scan for population-specific strong selective sweeps that have reached fixation

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Genomic regions exhibiting positive selection identified from dense genotype data

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Polymorphisms in human langerin affect stability and sugar binding activity

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Rational inferences about departures from Hardy-Weinberg equilibrium

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Selection and adaptation in the human genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

A 175 million year history of T cell regulatory molecules reveals widespread selection, with adaptive evolution of disease alleles.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Cytosolic aminopeptidases influence MHC class I-mediated antigen presentation in an allele-dependent manner

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Single residue determines the specificity of neutrophil elastase for Shigella virulence factors

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Rac1 and a GTPase-activating protein, MgcRacGAP, are required for nuclear translocation of STAT transcription factors

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

RevTrans: Multiple alignment of coding DNA from aligned amino acid sequences.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Accuracy and power of bayes prediction of amino acid sites under positive selection

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Automated phylogenetic detection of recombination using a genetic algorithm.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

PIC: Protein Interactions Calculator

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Unrooted genealogical tree probabilities in the infinitely-many-sites model.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Hitchhiking under positive Darwinian selection

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Statistical tests of neutrality of mutations

27 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3967941

Antigen processing by nardilysin and thimet oligopeptidase generates cytotoxic T cell epitopes

27 September 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Genetic diversity at endoplasmic reticulum aminopeptidases is maintained by balancing selection and is associated with natural resistance to HIV-1 infection

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Resistance to HIV-1 infection among highly exposed sex workers in Nairobi: what mediates protection and why does it develop?

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

NOX2 Controls Phagosomal pH to Regulate Antigen Processing during Crosspresentation by Dendritic Cells

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

The ‘immunologic advantage’ of HIV-exposed seronegative individuals

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PGEN.1004189

Multiple hypothesis testing to detect lineages under positive selection that affects only a few sites

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24675550

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Natural selection at major histocompatibility complex loci of vertebrates

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24675550

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PGEN.1004189

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24675550%20AND%20SRC:MED&resulttype=core&format=json

11 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24675550%20AND%20SRC:MED&resulttype=core&format=json

11 June 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:24675550%20AND%20SRC:MED&resulttype=core&format=json