List of works - Aleksandar Milosavljevic

Somatic mutations affect key pathways in lung adenocarcinoma

scientific article

Genome sequence of the Brown Norway rat yields insights into mammalian evolution

scientific article

The NIH Roadmap Epigenomics Mapping Consortium

scientific article (publication date: October 2010)

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

scientific article

Evolutionary and Biomedical Insights from the Rhesus Macaque Genome

scientific article

The genome of the sea urchin Strongylocentrotus purpuratus

scientific article

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications

scientific article

Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood

scientific article

Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome.

scientific article

A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy

scientific article published in 2012

An integrative variant analysis suite for whole exome next-generation sequencing data

scientific article published on January 12, 2012

Performance of ACMG-AMP Variant-Interpretation Guidelines among Nine Laboratories in the Clinical Sequencing Exploratory Research Consortium

scientific article published on 2 June 2016

Proinflammatory role for let-7 microRNAS in experimental asthma

scientific article

ReadDepth: A Parallel R Package for Detecting Copy Number Alterations from Short Sequencing Reads

scientific article published on January 31, 2011

A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer cell line yields insights into the evolution of a cancer genome

scientific article

Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors

scientific article published on April 14, 2011

MicroRNA transcriptome in the newborn mouse ovaries determined by massive parallel sequencing

scientific article

NAHR-mediated copy-number variants in a clinical population: mechanistic insights into both genomic disorders and Mendelizing traits

scientific article published on 08 May 2013

Use of array CGH to detect exonic copy number variants throughout the genome in autism families detects a novel deletion in TMLHE

scientific article

Analysis of MicroRNA Expression in the Prepubertal Testis

scientific article published on December 29, 2010

Abundance and length of simple repeats in vertebrate genomes are determined by their structural properties

scientific article published on 7 August 2008

Genomic hypomethylation in the human germline associates with selective structural mutability in the human genome

scientific article

Evolutionary breakpoints in the gibbon suggest association between cytosine methylation and karyotype evolution

scientific article (publication date: June 2009)

A genome-wide search for promoters that respond to increased MYCN reveals both new oncogenic and tumor suppressor microRNAs associated with aggressive neuroblastoma

scientific article

Intermediate DNA methylation is a conserved signature of genome regulation

scientific article

Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing

scientific article

mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities

scientific article published on April 3, 2014

ClinGen Pathogenicity Calculator: a configurable system for assessing pathogenicity of genetic variants

scientific article published on 12 January 2017

Centromere remodeling in Hoolock leuconedys (Hylobatidae) by a new transposable element unique to the gibbons.

scientific article published on 16 May 2012

Epigenomic footprints across 111 reference epigenomes reveal tissue-specific epigenetic regulation of lincRNAs.

scientific article

Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing.

scientific article

CDKN2D-WDFY2 is a cancer-specific fusion gene recurrent in high-grade serous ovarian carcinoma.

scientific article

The Genboree Microbiome Toolset and the analysis of 16S rRNA microbial sequences

scientific article

Emerging patterns of epigenomic variation

scientific article published on April 18, 2011

A high-resolution map of synteny disruptions in gibbon and human genomes

scientific article

Atlas2 Cloud: a framework for personal genome analysis in the cloud

scientific article published on October 26, 2012

Characterization of single-nucleotide variation in Indian-origin rhesus macaques (Macaca mulatta)

scientific article

The finished DNA sequence of human chromosome 12

scientific article

Song exposure regulates known and novel microRNAs in the zebra finch auditory forebrain

scientific article

Epigenomic Deconvolution of Breast Tumors Reveals Metabolic Coupling between Constituent Cell Types

scientific article

The DNA sequence, annotation and analysis of human chromosome 3

scientific article (publication date: 27 April 2006)

Spark: a navigational paradigm for genomic data exploration

scientific article

Pash: efficient genome-scale sequence anchoring by Positional Hashing

scientific article published on April 2004

Integration of extracellular RNA profiling data using metadata, biomedical ontologies and Linked Data technologies

scientific article

Recurrent BCAM-AKT2 fusion gene leads to a constitutively activated AKT2 fusion kinase in high-grade serous ovarian carcinoma

scientific article published on March 2, 2015

Long-range massively parallel mate pair sequencing detects distinct mutations and similar patterns of structural mutability in two breast cancer cell lines

scientific article

Extending gene ontology in the context of extracellular RNA and vesicle communication

scientific article published on 12 April 2016

Allele-specific epigenome maps reveal sequence-dependent stochastic switching at regulatory loci

scientific article published in Science

Pooled genomic indexing of rhesus macaque

scientific article

ClinGen Allele Registry links information about genetic variants

scientific article published in November 2018

List of works by Aleksandar Milosavljevic

Somatic mutations affect key pathways in lung adenocarcinoma

Genome sequence of the Brown Norway rat yields insights into mammalian evolution

The NIH Roadmap Epigenomics Mapping Consortium

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

Evolutionary and Biomedical Insights from the Rhesus Macaque Genome

The genome of the sea urchin Strongylocentrotus purpuratus

Comparison of sequencing-based methods to profile DNA methylation and identification of monoallelic epigenetic modifications

Functional annotation of the human brain methylome identifies tissue-specific epigenetic variation across brain and blood

Gastrointestinal microbiome signatures of pediatric patients with irritable bowel syndrome.

A metagenomic approach to characterization of the vaginal microbiome signature in pregnancy

An integrative variant analysis suite for whole exome next-generation sequencing data

Performance of ACMG-AMP Variant-Interpretation Guidelines among Nine Laboratories in the Clinical Sequencing Exploratory Research Consortium

Proinflammatory role for let-7 microRNAS in experimental asthma

ReadDepth: A Parallel R Package for Detecting Copy Number Alterations from Short Sequencing Reads

A sequence-level map of chromosomal breakpoints in the MCF-7 breast cancer cell line yields insights into the evolution of a cancer genome

Discovering functional modules by identifying recurrent and mutually exclusive mutational patterns in tumors

MicroRNA transcriptome in the newborn mouse ovaries determined by massive parallel sequencing

NAHR-mediated copy-number variants in a clinical population: mechanistic insights into both genomic disorders and Mendelizing traits

Use of array CGH to detect exonic copy number variants throughout the genome in autism families detects a novel deletion in TMLHE

Analysis of MicroRNA Expression in the Prepubertal Testis

Abundance and length of simple repeats in vertebrate genomes are determined by their structural properties

Genomic hypomethylation in the human germline associates with selective structural mutability in the human genome

Evolutionary breakpoints in the gibbon suggest association between cytosine methylation and karyotype evolution

A genome-wide search for promoters that respond to increased MYCN reveals both new oncogenic and tumor suppressor microRNAs associated with aggressive neuroblastoma

Intermediate DNA methylation is a conserved signature of genome regulation

Pash 3.0: A versatile software package for read mapping and integrative analysis of genomic and epigenomic variation using massively parallel DNA sequencing

mtDNA haplogroup and single nucleotide polymorphisms structure human microbiome communities

ClinGen Pathogenicity Calculator: a configurable system for assessing pathogenicity of genetic variants

Centromere remodeling in Hoolock leuconedys (Hylobatidae) by a new transposable element unique to the gibbons.

Epigenomic footprints across 111 reference epigenomes reveal tissue-specific epigenetic regulation of lincRNAs.

Comparison and quantitative verification of mapping algorithms for whole-genome bisulfite sequencing.

CDKN2D-WDFY2 is a cancer-specific fusion gene recurrent in high-grade serous ovarian carcinoma.

The Genboree Microbiome Toolset and the analysis of 16S rRNA microbial sequences

Emerging patterns of epigenomic variation

A high-resolution map of synteny disruptions in gibbon and human genomes

Atlas2 Cloud: a framework for personal genome analysis in the cloud

Characterization of single-nucleotide variation in Indian-origin rhesus macaques (Macaca mulatta)

The finished DNA sequence of human chromosome 12

Song exposure regulates known and novel microRNAs in the zebra finch auditory forebrain

Epigenomic Deconvolution of Breast Tumors Reveals Metabolic Coupling between Constituent Cell Types

The DNA sequence, annotation and analysis of human chromosome 3

Spark: a navigational paradigm for genomic data exploration

Pash: efficient genome-scale sequence anchoring by Positional Hashing

Integration of extracellular RNA profiling data using metadata, biomedical ontologies and Linked Data technologies

Recurrent BCAM-AKT2 fusion gene leads to a constitutively activated AKT2 fusion kinase in high-grade serous ovarian carcinoma

Long-range massively parallel mate pair sequencing detects distinct mutations and similar patterns of structural mutability in two breast cancer cell lines

Extending gene ontology in the context of extracellular RNA and vesicle communication

Allele-specific epigenome maps reveal sequence-dependent stochastic switching at regulatory loci

Pooled genomic indexing of rhesus macaque

ClinGen Allele Registry links information about genetic variants