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List of works by Graziano Pesole

A Differential Metabarcoding Approach to Describe Taxonomy Profiles of Bacteria and Archaea in the Saltern of Margherita di Savoia (Italy)

scientific article published on 22 June 2020

A Machine Learning Approach to Parkinson’s Disease Blood Transcriptomics

scientific article published on 21 April 2022

A guideline for the annotation of UTR regulatory elements in the UTRsite collection

scientific article published in January 2015

A high performance grid-web service framework for the identification of ‘conserved sequence tags’

A new strategy to identify novel genes and gene isoforms: Analysis of human chromosomes 15, 21 and 22.

scientific article

A novel additional group II intron distinguishes the mitochondrial rps3 gene in gymnosperms.

scientific article published in February 2005

A novel computational strategy to identify A-to-I RNA editing sites by RNA-Seq data: de novo detection in human spinal cord tissue

scientific article

A platform independent RNA-Seq protocol for the detection of transcriptome complexity

scientific article

A statistical method for detecting regions with different evolutionary dynamics in multialigned sequences

scientific article published in June 1992

A tandemly repeated DNA family originated from SINE-related elements in the European plethodontid salamanders (Amphibia, Urodela).

scientific article

A transcriptional sketch of a primary human breast cancer by 454 deep sequencing

scientific article

A unique, consistent identifier for alternatively spliced transcript variants

scientific article

A-GAME: improving the assembly of pooled functional metagenomics sequence data.

scientific article published on 12 January 2018

A-to-I RNA editing in SARS-COV-2: real or artifact?

scientific article published on 27 July 2020

ASPIC: a novel method to predict the exon-intron structure of a gene that is optimally compatible to a set of transcript sequences

scientific article

ASPIC: a web resource for alternative splicing prediction and transcript isoforms characterization

scientific article published on July 2006

ASPic-GeneID: a lightweight pipeline for gene prediction and alternative isoforms detection

scientific article published on 7 November 2013

ASPicDB: a database of annotated transcript and protein variants generated by alternative splicing

scientific article

ASPicDB: a database resource for alternative splicing analysis.

scientific article published on 3 April 2008

ASPicDB: a database web tool for alternative splicing analysis

scientific article published in January 2015

Accurate discrimination of conserved coding and non-coding regions through multiple indicators of evolutionary dynamics

scientific article

Accurate quantification of bacterial abundance in metagenomic DNAs accounting for variable DNA integrity levels

scientific article published on 04 August 2020

Analysis of oligonucleotide AUG start codon context in eukariotic mRNAs.

scientific article published on December 2000

Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs

scientific article (publication date: 5 December 2002)

Apolipoprotein(a): A Puzzling Evolutionary Story

scientific article published on 01 February 1997

Ascidian Mitogenomics: Comparison of Evolutionary Rates in Closely Related Taxa Provides Evidence of Ongoing Speciation Events

scientific article published on 21 April 2014

Ascidian mitogenomics: comparison of evolutionary rates in closely related taxa provides evidence of ongoing speciation events

scientific article published on March 2014

Assembly and characterization of pandemic influenza A H1N1 genome in nasopharyngeal swabs using high-throughput pyrosequencing.

scientific article

Assessing computational tools for the discovery of transcription factor binding sites

scientific article

Assessment of orthologous splicing isoforms in human and mouse orthologous genes

scientific article

BALB/c and C57BL/6 Mice Differ in Polyreactive IgA Abundance, which Impacts the Generation of Antigen-Specific IgA and Microbiota Diversity

scientific article published on 5 September 2015

BCR/ABL1 fusion transcripts generated from alternative splicing: implications for future targeted therapies in Ph+ leukaemias.

scientific article published on June 2012

BioMaS: a modular pipeline for Bioinformatic analysis of Metagenomic AmpliconS.

scientific article published on July 2015

BioVeL: a virtual laboratory for data analysis and modelling in biodiversity science and ecology

scientific article

Bioinformatics Resources for RNA Editing

scientific article published on 01 January 2021

Bioinformatics approaches for genomics and post genomics applications of next-generation sequencing

scientific article published on 27 October 2009

Bioinformatics in Italy: BITS2007, the fourth annual meeting of the Italian Society of Bioinformatics.

scientific article published on 26 March 2008

Building essential biodiversity variables (EBVs) of species distribution and abundance at a global scale

scientific article

CSTminer: a web tool for the identification of coding and noncoding conserved sequence tags through cross-species genome comparison

scientific article published on July 2004

Changes in Escherichia coli transcriptome during acclimatization at low temperature.

scientific article

Changes in gene expression and metabolic profile of drupes of Olea europaea L. cv Carolea in relation to maturation stage and cultivation area

scientific article published on 16 October 2019

Characterization of Epstein–Barr virus genotypes in multiple sclerosis through next generation sequencing approaches

scholarly article by Giulia Coarelli et al published October 2014 in Journal of Neuroimmunology

Clustering and Assembling Large Transcriptome Datasets by EasyCluster2

article by Vitoantonio Bevilacqua et al published 2013 in Communications in Computer and Information Science

CoVaCS: a consensus variant calling system

scientific article

Comparative Genomics of Listeria Sensu Lato: Genus-Wide Differences in Evolutionary Dynamics and the Progressive Gain of Complex, Potentially Pathogenicity-Related Traits through Lateral Gene Transfer.

scientific article

Comparative genomics suggests limited variability and similar evolutionary patterns between major clades of SARS-CoV-2

scientific article published on 02 April 2020

Complete mtDNA of Ciona intestinalis reveals extensive gene rearrangement and the presence of an atp8 and an extra trnM gene in ascidians

scientific article

Complexity and Dynamics of the Winemaking Bacterial Communities in Berries, Musts, and Wines from Apulian Grape Cultivars through Time and Space

scientific article

Computational identification of protein coding potential of conserved sequence tags through cross-species evolutionary analysis

scientific article

Computational methods for ab initio and comparative gene finding

scientific article published on January 2010

Computational methods for alternative splicing prediction

scientific article published on 20 February 2006

Congruent Mammalian Trees from Mitochondrial and Nuclear Genes Using Bayesian Methods

article

CorGAT: a tool for the functional annotation of SARS-CoV-2 genomes

scientific article published on 21 December 2020

Correction: High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera

scientific article

Correlated substitution analysis and the prediction of amino acid structural contacts.

scientific article

Corrigendum: Genome Sequencing and Comparative Analysis of Three Hanseniaspora uvarum Indigenous Wine Strains Reveal Remarkable Biotechnological Potential

scientific article published on 09 June 2020

Corrigendum: No Change in the Mucosal Gut Microbiome is Associated with Celiac Disease-Specific Microbiome Alteration in Adult Patients.

scientific article

Corrigendum: Profiling RNA editing in human tissues: towards the inosinome Atlas.

scientific article published on 8 February 2016

Critical assessment of bioinformatics methods for the characterization of pathological repeat expansions with single-molecule sequencing data

scientific article published on 03 December 2019

Cscan: finding common regulators of a set of genes by using a collection of genome-wide ChIP-seq datasets

scientific article published on 4 June 2012

Cumulus Cell Transcriptome after Cumulus-Oocyte Complex Exposure to Nanomolar Cadmium in an In Vitro Animal Model of Prepubertal and Adult Age

scientific article published on 4 February 2023

Cyclic AMP induces reversible EPAC1 condensates that regulate histone transcription

scientific article published on 8 September 2023

DG-CST (Disease Gene Conserved Sequence Tags), a database of human-mouse conserved elements associated to disease genes

scientific article

DNA Multiple Sequence Alignment Guided by Protein Domains: The MSA-PAD 2.0 Method

scientific article published in January 2018

DNAfan: a software tool for automated extraction and analysis of user-defined sequence regions

article

Dealing with the promise of metabarcoding in mega-event biomonitoring: EXPO2015 unedited data

Detecting alternative gene structures from spliced ESTs: a computational approach

scientific article

Detection of post-transcriptional RNA editing events

scientific article published on January 2015

Developmental factor IRF6 exhibits tumor suppressor activity in squamous cell carcinomas

scientific article

Differences in gene expression and cytokine release profiles highlight the heterogeneity of distinct subsets of adipose tissue-derived stem cells in the subcutaneous and visceral adipose tissue in humans

scientific article

Direct evidence that restriction endonucleases may under estimate the degree of divergence between molecules

scientific article published in August 1990

Discovery of 342 putative new genes from the analysis of 5'-end-sequenced full-length-enriched cDNA human transcripts.

scientific article

Diversity of hydrolases from hydrothermal vent sediments of the Levante Bay, Vulcano Island (Aeolian archipelago) identified by activity-based metagenomics and biochemical characterization of new esterases and an arabinopyranosidase

scientific article

Draft Genome Sequences of Six Listeria monocytogenes Strains Isolated from Dairy Products from a Processing Plant in Southern Italy

scientific article

Draft Genome Sequences of Three Novel Staphylococcus arlettae Strains Isolated from a Disused Biological Safety Cabinet

scientific article published on 04 October 2018

Draft genome sequence of Acinetobacter sp. neg1 capable of degrading ochratoxin A.

scientific article published on 18 January 2015

Draft genome sequence ofSphingobiumsp. strain ba1, resistant to kanamycin and nickel ions

scientific article published on 01 December 2014

Dynamic inosinome profiles reveal novel patient stratification and gender-specific differences in glioblastoma

scientific article published on 13 February 2019

ELIXIR-IT HPC@CINECA: high performance computing resources for the bioinformatics community

scientific article published on 21 August 2020

EasyCluster2: an improved tool for clustering and assembling long transcriptome reads

scientific article

EasyCluster: a fast and efficient gene-oriented clustering tool for large-scale transcriptome data

scientific article

Editorial

Elucidating the editome: bioinformatics approaches for RNA editing detection

scientific article published on 11 October 2017

Endogenous murine microbiota member Faecalibaculum rodentium and its human homologue protect from intestinal tumour growth

scientific article published on 27 January 2020

Energy biogenesis: one key for coordinating two genomes

scientific article published in January 2005

Enrichment of intestinal Lactobacillus by enhanced secretory IgA coating alters glucose homeostasis in P2rx7-/- mice

scientific article published on 27 June 2019

Epstein-Barr virus genetic variants are associated with multiple sclerosis

scientific article

Erratum to “Structural and evolutionary analysis of the ribosomal genes of the parasitic nematode Meloidogyne artiellia suggests its ancient origin”

article

Establishing the ELIXIR Microbiome Community

scientific article published on 8 January 2024

Estimating the statistical significance of classifiers by varying the number of genes

Evolution of genes and genomes on the Drosophila phylogeny

scientific article

Evolution of nuclearly encoded mitochondrial genes in Metazoa

scientific article published in July 2005

Evolution of the mitochondrial genetic system: an overview

scientific article

Evolution of the mitochondrial genome of Metazoa as exemplified by comparison of congeneric species

scientific article published on 09 July 2008

Evolutionary analysis of cytochrome b sequences in some Perciformes: evidence for a slower rate of evolution than in mammals

scientific article published in December 1994

Evolutionary analysis of the nucleus-encoded subunits of mammalian cytochrome c oxidase

article

Evolutionary dynamics of mammalian mRNA untranslated regions by comparative analysis of orthologous human, artiodactyl and rodent gene pairs

scientific article

Evolutionary genomics in Metazoa: the mitochondrial DNA as a model system

scientific article

Exalign: a new method for comparative analysis of exon-intron gene structures

scientific article published on 08 April 2008

ExpEdit: a webserver to explore human RNA editing in RNA-Seq experiments

scientific article

Exploring the RNA editing potential of RNA-Seq data by ExpEdit

scientific article

Expression and genomic analyses of Camelus dromedarius T cell receptor delta (TRD) genes reveal a variable domain repertoire enlargement due to CDR3 diversification and somatic mutation

scientific article published on 20 April 2011

Finding Conserved Gene Order Across Multiple Genomes

article

Finding conserved gene order across multiple genomes

scientific article published on 01 January 2007

Functional Integration of mRNA Translational Control Programs

scientific article (publication date: 2015)

Functional annotation of a full-length mouse cDNA collection

scientific article (publication date: 8 February 2001)

GeneSyn: a tool for detecting conserved gene order across genomes

scientific article published on 19 February 2004

GenoMiner: a tool for genome-wide search of coding and non-coding conserved sequence tags

scientific article published on 2 November 2005

Genome Sequencing and Comparative Analysis of Three Hanseniaspora uvarum Indigenous Wine Strains Reveal Remarkable Biotechnological Potential

scientific article published on 01 January 2019

Genome Sequencing of Multiple Isolates Highlights Subtelomeric Genomic Diversity within Fusarium fujikuroi

scientific article

Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita

scientific article

Genome-wide analysis of differentially expressed genes and splicing isoforms in clear cell renal cell carcinoma

scientific article

Genome-wide identification of coding and non-coding conserved sequence tags in human and mouse genomes

scientific article

Genomic organization and recombinational unit duplication-driven evolution of ovine and bovine T cell receptor gamma loci

scientific article

Geographic Population Structure in Epstein-Barr Virus Revealed by Comparative Genomics

scientific article

Global immune disregulation in multiple sclerosis: from the adaptive response to the innate immunity

scientific article

Gypsy/Ty3-like elements in the genome of the terrestrial Salamander hydromantes (Amphibia, Urodela).

scientific article published in December 1996

HPC-REDItools: a novel HPC-aware tool for improved large scale RNA-editing analysis

scientific article published on 21 August 2020

HT-RLS: High-Throughput Web Tool for Analysis of DNA Microarray Data Using RLS classifiers

High throughput approaches reveal splicing of primary microRNA transcripts and tissue specific expression of mature microRNAs in Vitis vinifera

scientific article

High-Throughput Sequencing to Detect DNA-RNA Changes

scientific article published on 01 January 2021

How genomics can help biodiversity conservation

Human Endometrial Microbiota at Term of Normal Pregnancies

scientific article published on 26 November 2019

Human access impacts biodiversity of microscopic animals in sandy beaches

scientific article published on 20 April 2020

Huntingtin gene evolution in Chordata and its peculiar features in the ascidian Ciona genus

scientific article published on 8 November 2006

Hypervariability of Ascidian Mitochondrial Gene Order: Exposing the Myth of Deuterostome Organelle Genome Stability

article

ITSoneDB: a comprehensive collection of eukaryotic ribosomal RNA Internal Transcribed Spacer 1 (ITS1) sequences

scientific article published on 25 September 2017

Identification and functional characterization of two new transcriptional variants of the human p63 gene

scientific article published on 21 August 2009

Identification of tumor-associated cassette exons in human cancer through EST-based computational prediction and experimental validation

scientific article

Identification, molecular characterization, and tissue expression of OVCOV1.

scientific article

Internet resources for the functional analysis of 5′ and 3′ untranslated regions of eukaryotic mRNAs

article

Intestinal microbiota sustains inflammation and autoimmunity induced by hypomorphic RAG defects

scientific article

Investigating Human Mitochondrial Genomes in Single Cells

scientific article published on 11 May 2020

Investigating RNA editing in deep transcriptome datasets with REDItools and REDIportal

scientific article published on 29 January 2020

Isochore specificity of AUG initiator context of human genes

scientific article

Jellyfish summer outbreaks as bacterial vectors and potential hazards for marine animals and humans health? The case of Rhizostoma pulmo (Scyphozoa, Cnidaria)

scientific article published on 19 July 2019

Laniakea: an open solution to provide Galaxy "on-demand" instances over heterogeneous cloud infrastructures

scholarly article published 19 November 2018

Laniakea: an open solution to provide Galaxy "on-demand" instances over heterogeneous cloud infrastructures

scientific article published on 01 April 2020

Laniakea@ReCaS: exploring the potential of customisable Galaxy on-demand instances as a cloud-based service

scientific article published on 08 November 2021

Large-scale detection and analysis of RNA editing in grape mtDNA by RNA deep-sequencing

scientific article published on 12 April 2010

Lineage specificity of the evolutionary dynamics of the mtDNA D-loop region in rodents

scientific article

Lineage-specific evolution of echinoderm mitochondrial ATP synthase subunit 8.

scientific article published in June 1997

Linguistic approaches to the analysis of sequence information

scientific article published on October 1994

Long-branch attraction phenomenon and the impact of among-site rate variation on rodent phylogeny

scientific article (publication date: 23 December 2000)

MERGE: a software package for generating a single data-base starting from EMBL and GenBank collections

scientific article

MSA-PAD: DNA multiple sequence alignment framework based on PFAM accessed domain information: Fig. 1

scientific article published on 26 March 2015

MToolBox: a highly automated pipeline for heteroplasmy annotation and prioritization analysis of human mitochondrial variants in high-throughput sequencing

scientific article

Mammalian mitochondrial D-loop region structural analysis: identification of new conserved sequences and their functional and evolutionary implications

scientific article published in December 1997

Management at the service of research: ReOmicS, a quality management system for omics sciences

scientific article published in 2019

Massive transcriptome sequencing of human spinal cord tissues provides new insights into motor neuron degeneration in ALS

scientific article published on 30 August 2017

Metagenomics Reveals Dysbiosis and a Potentially Pathogenic N. flavescens Strain in Duodenum of Adult Celiac Patients

scientific article

MitoNuc: a database of nuclear genes coding for mitochondrial proteins. Update 2002.

scientific article published on January 2002

MitoZoa 2.0: a database resource and search tools for comparative and evolutionary analyses of mitochondrial genomes in Metazoa

scientific article

MitoZoa: A curated mitochondrial genome database of metazoans for comparative genomics studies

scholarly article by Renato Lupi et al published March 2010 in Mitochondrion

Mitochondrial DNA in metazoa: degree of freedom in a frozen event

scientific article

Mitochondrial and Nuclear DNA Variants in Amyotrophic Lateral Sclerosis: Enrichment in the Mitochondrial Control Region and Sirtuin Pathway Genes in Spinal Cord Tissue

scientific article published on 28 March 2024

Mitochondrial genomes gleaned from human whole-exome sequencing ⬇️

scientific article published on May 30, 2012

Mitochondrial phylogeny of Anura (Amphibia): a case study of congruent phylogenetic reconstruction using amino acid and nucleotide characters

scientific article

Mitogenomics reveals two cryptic species in Ciona intestinalis

scientific article

MoD Tools: regulatory motif discovery in nucleotide sequences from co-regulated or homologous genes

scientific article published on July 2006

Molecular classification of living organisms

scientific article published on 01 March 1995

Molecular clock and gene function

scientific article published in January 2003

Molecular strategies in Metazoan genomic evolution

scientific article published on 01 October 2002

Motif discovery and transcription factor binding sites before and after the next-generation sequencing era.

scientific article published on 19 April 2012

NGS-Trex: Next Generation Sequencing Transcriptome profile explorer

scientific article

Natural and after colon washing fecal samples: the two sides of the coin for investigating the human gut microbiome

scientific article published in 2022

New Tools for Expression Alternative Splicing Validation

Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities

scientific article published on 07 December 2020

No Change in the Mucosal Gut Microbiome is Associated With Celiac Disease-Specific Microbiome Alteration in Adult Patients

scientific article published in November 2016

No metagenomic evidence of tumorigenic viruses in cancers from a selected cohort of immunosuppressed subjects

scientific article published on 24 December 2019

ODESSA: A high performance analysis pipeline for Ultra Deep targeted Exome Sequencing data

On the statistical assessment of classifiers using DNA microarray data

scientific article

PIntron: a fast method for detecting the gene structure due to alternative splicing via maximal pairings of a pattern and a text ⬇️

scientific article

PatSearch: A program for the detection of patterns and structural motifs in nucleotide sequences

scientific article

Phylogenetic analyses of complete mitochondrial genome sequences suggest a basal divergence of the enigmatic rodent Anomalurus

scientific article published in 2007

Phylogenetic analyses: a brief introduction to methods and their application

scientific article published on May 2004

Phylogenetic comparison of huntingtin homologues reveals the appearance of a primitive polyQ in sea urchin

scientific article published on 28 November 2007

Plant Health and Rhizosphere Microbiome: Effects of the Bionematicide <i>Aphanocladium album</i> in Tomato Plants Infested by <i>Meloidogyne javanica</i>

scientific article published on 03 December 2020

Platelets from patients with visceral obesity promote colon cancer growth

scientific article published on 01 January 2022

Profile of microbial communities on carbonate stones of the medieval church of San Leonardo di Siponto (Italy) by Illumina-based deep sequencing.

scientific article

Profiling RNA editing in human tissues: towards the inosinome Atlas

scientific article

Pscan: finding over-represented transcription factor binding site motifs in sequences from co-regulated or co-expressed genes

scientific article published on 31 May 2009

PscanChIP: Finding over-represented transcription factor-binding site motifs and their correlations in sequences from ChIP-Seq experiments

scientific article published on 7 June 2013

Quantifying RNA Editing in Deep Transcriptome Datasets

scientific article published on 06 March 2020

RAP: RNA-Seq Analysis Pipeline, a new cloud-based NGS web application

scientific article published on June 2015

REDIdb 3.0: A Comprehensive Collection of RNA Editing Events in Plant Organellar Genomes

scientific article published on 11 April 2018

REDIportal: a comprehensive database of A-to-I RNA editing events in humans

scientific article

REDIportal: millions of novel A-to-I RNA editing events from thousands of RNAseq experiments

scientific article published on 26 October 2020

REDItools: high-throughput RNA editing detection made easy ⬇️

scientific article published on June 5, 2013

RNA editing in plants: A comprehensive survey of bioinformatics tools and databases

scientific article published on 02 February 2019

RNA editing signature during myeloid leukemia cell differentiation.

scientific article published on 9 May 2017

RNAProfile: an algorithm for finding conserved secondary structure motifs in unaligned RNA sequences

scientific article published on 15 June 2004

RNentropy: an entropy-based tool for the detection of significant variation of gene expression across multiple RNA-Seq experiments.

scientific article published on 30 January 2018

Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR

scientific article published on 3 December 2021

Recommendations for connecting molecular sequence and biodiversity research infrastructures through ELIXIR

scientific article published in 2022

Reference databases for taxonomic assignment in metagenomics

scientific article

Regularized Least Squares Cancer classifiers from DNA microarray data

scientific article

Regulation of the expression of CLU isoforms in endometrial proliferative diseases

scientific article published on 11 April 2013

SVM²: an improved paired-end-based tool for the detection of small genomic structural variations using high-throughput single-genome resequencing data

scientific article

Seasonal rather than spatial variability drives planktonic and benthic bacterial diversity in a microtidal lagoon and the adjacent open sea.

scientific article

Selection of relevant genes in cancer diagnosis based on their prediction accuracy

scientific article published on 22 August 2006

Sequence analysis and compositional properties of untranslated regions of human mRNAs

scientific article published in March 1994

Single-cell transcriptomics reveals specific RNA editing signatures in the human brain

scientific article

SpliceAid-F: a database of human splicing factors and their RNA-binding sites

scientific article

Staphylococcus arlettae Genomics: Novel Insights on Candidate Antibiotic Resistance and Virulence Genes in an Emerging Opportunistic Pathogen

scientific article published on 19 November 2019

Statistical assessment of discriminative features for protein-coding and non coding cross-species conserved sequence elements

scientific article

Statistical assessment of functional categories of genes deregulated in pathological conditions by using microarray data

scientific article

Structural and Comparative Analyses of Insects Suggest the Presence of an Ultra-Conserved Regulatory Element of the Genes Encoding Vacuolar-Type ATPase Subunits and Assembly Factors

scientific article published on 13 August 2023

Structural and compositional features of untranslated regions of eukaryotic mRNAs

article

Structural and evolutionary analysis of the ribosomal genes of the parasitic nematode Meloidogyne artiellia suggests its ancient origin

scientific article published in September 2002

Structural and functional features of eukaryotic mRNA untranslated regions

scientific article

T Follicular Helper Cells Promote a Beneficial Gut Ecosystem for Host Metabolic Homeostasis by Sensing Microbiota-Derived Extracellular ATP.

scientific article published on March 2017

TRIM8 Blunts the Pro-proliferative Action of ΔNp63α in a p53 Wild-Type Background

scientific article published on 05 November 2019

TRIM8 anti-proliferative action against chemo-resistant renal cell carcinoma.

scientific article

TRIM8 modulates p53 activity to dictate cell cycle arrest.

scientific article published on February 2012

TRIM8 restores p53 tumour suppressor function by blunting N-MYC activity in chemo-resistant tumours.

scientific article published on 21 March 2017

Targeted next-generation sequencing detects novel gene-phenotype associations and expands the mutational spectrum in cardiomyopathies

scientific article

Targeting Chemoresistant Tumors: Could TRIM Proteins-p53 Axis Be a Possible Answer? ⬇️

scientific article published on 10 April 2019

The BioVel Project: Robust phylogenetic workflows running on the GRID

scholarly article by Saverio Vicario et al published 9 November 2012 in EMBnet.Journal

The Microbial Community Associated with Rhizostoma pulmo: Ecological Significance and Potential Consequences for Marine Organisms and Human Health

scientific article published on 21 August 2020

The era of reference genomes in conservation genomics

scientific article published in March 2022

The estimation of relative site variability among aligned homologous protein sequences

scientific article published in March 2003

The future of food and nutrition in ELIXIR

scientific article published on 25 August 2022

The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

scientific article

The influence of invasive jellyfish blooms on the aquatic microbiome in a coastal lagoon (Varano, SE Italy) detected by an Illumina-based deep sequencing strategy

article

The main regulatory region of mammalian mitochondrial DNA: structure-function model and evolutionary pattern

scientific article published in July 1991

The members of the RH gene family (RH50 and RH30) followed different evolutionary pathways

scientific article published in February 1999

The metagenomic data life-cycle: standards and best practices.

scientific article

The mitochondrial genome of Phallusia mammillata and Phallusia fumigata (Tunicata, Ascidiacea): high genome plasticity at intra-genus level

scientific article (publication date: 31 August 2007)

The neglected genome

scientific article published on June 2012

The nuclear OXPHOS genes in insecta: a common evolutionary origin, a common cis-regulatory motif, a common destiny for gene duplicates

scientific article

The transcriptional landscape of the mammalian genome

scientific article

Time and biosequences: a contribution to the origin of modern man

Tissue-specific mtDNA abundance from exome data and its correlation with mitochondrial transcription, mass and respiratory activity

scientific article

Towards global interoperability for supporting biodiversity research on essential biodiversity variables (EBVs)

article published in 2015

Transcript mapping and genome annotation of ascidian mtDNA using EST data

scientific article

Transcriptional Analysis of Acinetobacter sp. neg1 Capable of Degrading Ochratoxin A.

scientific article published on January 2016

Transcriptome Assembly and Alternative Splicing Analysis

Translational control of Scamper expression via a cell-specific internal ribosome entry site

scientific article

UTRdb 2.0: a comprehensive, expert curated catalog of eukaryotic mRNAs untranslated regions

scientific article published on 18 November 2022

UTRdb and UTRsite (RELEASE 2010): a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs

scientific article

UTRdb and UTRsite: a collection of sequences and regulatory motifs of the untranslated regions of eukaryotic mRNAs

scientific article

UTRdb and UTRsite: specialized databases of sequences and functional elements of 5' and 3' untranslated regions of eukaryotic mRNAs. Update 2002.

scientific article published on January 2002

UTRdb: a specialized database of 5' and 3' untranslated regions of eukaryotic mRNAs.

scientific article published on January 1999

UTRdb: a specialized database of 5'- and 3'-untranslated regions of eukaryotic mRNAs

scientific article published on January 1998

Unbiased Taxonomic Annotation of Metagenomic Samples

Unbiased Taxonomic Annotation of Metagenomic Samples.

scientific article published on 13 October 2017

Uncovering RNA Editing Sites in Long Non-Coding RNAs.

scientific article published on 5 December 2014

Untranslated regions of mRNAs

scientific article

Using REDItools to Detect RNA Editing Events in NGS Datasets.

scientific article published on 9 March 2015

Using Weeder for the discovery of conserved transcription factor binding sites

scientific article published in October 2006

Using Weeder, Pscan, and PscanChIP for the Discovery of Enriched Transcription Factor Binding Site Motifs in Nucleotide Sequences.

scientific article published on 8 September 2014

Using community events to increase quality and adoption of standards: the case of Bioschemas

VDR primary targets by genome-wide transcriptional profiling

scientific article published on 13 April 2014

VINYL: Variant prIoritizatioN by survivaL analysis

scientific article published on 26 December 2020

WEP: a high-performance analysis pipeline for whole-exome data

scientific article

WebVar: A resource for the rapid estimation of relative site variability from multiple sequence alignments

scientific article published on 10 February 2004

Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes

scientific article published on July 2004

WeederH: an algorithm for finding conserved regulatory motifs and regions in homologous sequences

scientific article published on 7 February 2007

What is a gene? An updated operational definition

article

Whole transcriptome profiling of Late-Onset Alzheimer's Disease patients provides insights into the molecular changes involved in the disease.

scientific article published on 9 March 2018

YAP contributes to DNA methylation remodeling upon mouse embryonic stem cell differentiation

scientific article published on 02 December 2020

p53FamTaG: a database resource of human p53, p63 and p73 direct target genes combining in silico prediction and microarray data

scientific article

uAUG and uORFs in human and rodent 5'untranslated mRNAs

scientific article

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