User profiles for Pär G. Engström
Pär EngströmScience for Life Laboratory, Stockholm University Verified email at scilifelab.se Cited by 15238 |
[HTML][HTML] Systematic evaluation of spliced alignment programs for RNA-seq data
High-throughput RNA sequencing is an increasingly accessible method for studying gene
structure and activity on a genome-wide scale. A critical step in RNA-seq data analysis is the …
structure and activity on a genome-wide scale. A critical step in RNA-seq data analysis is the …
[HTML][HTML] Assessment of transcript reconstruction methods for RNA-seq
T Steijger, JF Abril, PG Engström, F Kokocinski… - Nature …, 2013 - nature.com
We evaluated 25 protocol variants of 14 independent computational methods for exon
identification, transcript reconstruction and expression-level quantification from RNA-seq data. …
identification, transcript reconstruction and expression-level quantification from RNA-seq data. …
Genome-wide analysis of mammalian promoter architecture and evolution
Mammalian promoters can be separated into two classes, conserved TATA box–enriched
promoters, which initiate at a well-defined site, and more plastic, broad and evolvable CpG-…
promoters, which initiate at a well-defined site, and more plastic, broad and evolvable CpG-…
[HTML][HTML] Complex loci in human and mouse genomes
Mammalian genomes harbor a larger than expected number of complex loci, in which
multiple genes are coupled by shared transcribed regions in antisense orientation and/or by …
multiple genes are coupled by shared transcribed regions in antisense orientation and/or by …
Genomic regulatory blocks encompass multiple neighboring genes and maintain conserved synteny in vertebrates
…, P Navratilova, AZ Komisarczuk, PG Engström… - Genome …, 2007 - genome.cshlp.org
We report evidence for a mechanism for the maintenance of long-range conserved synteny
across vertebrate genomes. We found the largest mammal-teleost conserved chromosomal …
across vertebrate genomes. We found the largest mammal-teleost conserved chromosomal …
[HTML][HTML] Arrays of ultraconserved non-coding regions span the loci of key developmental genes in vertebrate genomes
Background Evolutionarily conserved sequences within or adjoining orthologous genes
often serve as critical cis-regulatory regions. Recent studies have identified long, non-coding …
often serve as critical cis-regulatory regions. Recent studies have identified long, non-coding …
Long-range gene regulation links genomic type 2 diabetes and obesity risk regions to HHEX, SOX4, and IRX3
…, Ø Drivenes, PG Engström… - Proceedings of the …, 2010 - National Acad Sciences
Genome-wide association studies identified noncoding SNPs associated with type 2 diabetes
and obesity in linkage disequilibrium (LD) blocks encompassing HHEX-IDE and introns of …
and obesity in linkage disequilibrium (LD) blocks encompassing HHEX-IDE and introns of …
Genomic regulatory blocks underlie extensive microsynteny conservation in insects
Insect genomes contain larger blocks of conserved gene order (microsynteny) than would be
expected under a random breakage model of chromosome evolution. We present evidence …
expected under a random breakage model of chromosome evolution. We present evidence …
RNAdb 2.0—an expanded database of mammalian non-coding RNAs
…, S Stephen, ME Dinger, PG Engström… - Nucleic acids …, 2007 - academic.oup.com
RNAdb is a comprehensive database of mammalian non-protein-coding RNAs (ncRNAs).
There is increasing recognition that ncRNAs play important regulatory roles in multicellular …
There is increasing recognition that ncRNAs play important regulatory roles in multicellular …
[HTML][HTML] Transcript annotation in FANTOM3: mouse gene catalog based on physical cDNAs
The international FANTOM consortium aims to produce a comprehensive picture of the
mammalian transcriptome, based upon an extensive cDNA collection and functional annotation …
mammalian transcriptome, based upon an extensive cDNA collection and functional annotation …