List of works by Wojciech Makalowski

"Orphan" retrogenes in the human genome

scientific article published on 12 October 2012

A Map of 3′ DNA Transduction Variants Mediated by Non-LTR Retroelements on 3202 Human Genomes

scientific article published in 2022

A YAC-based physical map of the mouse genome.

scientific article

A novel web-based TinT application and the chronology of the Primate Alu retroposon activity

scientific article (publication date: 2 December 2010)

A tRNA Pseudogene in the ArchaeonMethanococcus jannaschii

scientific article published on 01 January 2000

A transposable element-mediated gene divergence that directly produces a novel type bovine Bcnt protein including the endonuclease domain of RTE-1.

scientific article

A young Alu subfamily amplified independently in human and African great apes lineages

scientific article

Alu alert

scientific article published in Nature

Amoebozoa possess lineage-specific globin gene repertoires gained by individual horizontal gene transfers.

scientific article published on 19 June 2014

An integrated genome-wide multi-omics analysis of gene expression dynamics in the preimplantation mouse embryo

scientific article published on 16 September 2019

Are CpG sites mutation hot spots in the dystrophin gene?

article

Are we polyploids? A brief history of one hypothesis

scientific article (publication date: May 2001)

Bioinformatics of nanopore sequencing

scientific article published on 26 August 2019

Characterization of the mitochondrial genome of Rousettus leschenaulti.

scientific article published on 2 July 2013

Chromosomes and expression mechanisms

scientific article published on 01 April 2001

Chromosomes and expression mechanisms Web alert

scientific article published on 01 April 1998

Comparative genomic analysis of retrogene repertoire in two green algae Volvox carteri and Chlamydomonas reinhardtii

scientific article

Comparative genomics of neuroglobin reveals its early origins

scientific article

Complementary DNA for 12-Kilodalton B Cell Growth Factor: Misassigned

scholarly article

Conservation of the Exon-Intron Structure of Long Intergenic Non-Coding RNA Genes in Eutherian Mammals

scientific article

Conserved signals in the 5′ flanking region of eukaryotic nuclear tRNA genes

article

Corrigendum: Interactive transcriptome analysis of malaria patients and infecting

scholarly article by Junya Yamagishi et al published August 2018 in Genome Research

Corrigendum: Retrophylogenomics Place Tarsiers on the Evolutionary Branch of Anthropoids.

scientific article published on 28 July 2015

DB-AT: a 2015 update to the Full-parasites database brings a multitude of new transcriptomic data for apicomplexan parasites

scientific article

DED: Database of Evolutionary Distances

scientific article

Determinants of plant U12-dependent intron splicing efficiency

scientific article published on 20 April 2004

Differences in embryo quality are associated with differences in oocyte composition: a proteomic study in inbred mice.

scientific article published on 03 January 2015

Do transposable elements really contribute to proteomes?

scientific article

Does the AD7c-NTP locus encode a protein?

scientific article published on 31 December 2004

Eighty percent of proteins are different between humans and chimpanzees.

scientific article published in February 2005

Emergence and Evolution of ERM Proteins and Merlin in Metazoans

scientific article published on 01 January 2020

Enhancer occlusion transcripts regulate the activity of human enhancer domains via transcriptional interference: a computational perspective

scientific article published on 01 April 2020

Environmental adaptation of Acanthamoeba castellanii and Entamoeba histolytica at genome level as seen by comparative genomic analysis.

scientific article published on 12 February 2018

Evola: Ortholog database of all human genes in H-InvDB with manual curation of phylogenetic trees

scientific article

Evolution of genes and genomes on the Drosophila phylogeny

scientific article

Evolutionary conservation and somatic mutation hotspot maps of p53: correlation with p53 protein structural and functional features.

scientific article

Evolutionary dynamics of U12-type spliceosomal introns

scientific article

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

scientific article

Evolutionary parameters of the transcribed mammalian genome: an analysis of 2,820 orthologous rodent and human sequences

scientific article

Evolutionary sequence comparisons using high-density oligonucleotide arrays.

scientific article published in February 1998

Frequent human genomic DNA transduction driven by LINE-1 retrotransposition

scientific article

Functional persistence of exonized mammalian-wide interspersed repeat elements (MIRs)

scientific article

GENOMICS: Not Junk After All

scientific article published on 01 May 2003

GPAC-genome presence/absence compiler: a web application to comparatively visualize multiple genome-level changes.

scientific article published on 25 September 2014

GenoTypeMapper: graphical genotyping on genetic and sequence-based maps

scientific article published on 10 September 2020

Genome evolution

scientific article

Genome research: the second decade. A report on the XI Cold Spring Harbor Laboratory Meeting On Genome Mapping and Sequencing, May 13–17, 1998, Cold Spring Harbor, NY

article

Genomes and evolution

scientific article published on 01 December 2000

Human and nematode orthologs--lessons from the analysis of 1800 human genes and the proteome of Caenorhabditis elegans

scientific article

Hypoxia induces mitochondrial DNA damage and stimulates expression of a DNA repair enzyme, the Escherichia coli MutY DNA glycosylase homolog (MYH), in vivo, in the rat brain

scientific article

Inferring clonal structure in HTLV-1-infected individuals: towards bridging the gap between analysis and visualization

scientific article published on 11 July 2017

Integrative annotation of 21,037 human genes validated by full-length cDNA clones

scientific article

Interactive transcriptome analysis of malaria patients and infecting Plasmodium falciparum

scientific article

Lack of population differentiation patterns of previously identified putatively adaptive transposable element insertions at microgeographic scales.

scientific article

Life cycle adapted upstream open reading frames (uORFs) in Trypanosoma congolense: A post-transcriptional approach to accurate gene regulation

scientific article published in PLoS ONE

Loss of ADAMTS19 causes progressive non-syndromic heart valve disease

scientific article published on 16 December 2019

Loss-of-function uORF mutations in human malignancies

scientific article

Mammalian overlapping genes: the comparative perspective.

scientific article published on February 2004

Mastering seeds for genomic size nucleotide BLAST searches

scientific article published on December 2003

Methodological function of hypotheses in science: old ideas in new cloth.

scientific article

Mobilome of Apicomplexa Parasites

scientific article published on 16 May 2022

Molecular archeology of L1 insertions in the human genome.

scientific article

Molecular dynamics simulations through GPU video games technologies

scientific article published on 30 June 2014

Mutational Intratumor Heterogeneity is a Complex and Early Event in the Development of Adult T-cell Leukemia/Lymphoma

NanoPipe-a web server for nanopore MinION sequencing data analysis

scientific article published on 01 February 2019

Nanopore sequencing of drug-resistance-associated genes in malaria parasites, Plasmodium falciparum.

scientific article

Nucleotide sequence of the mitochondrial 5S rRNA gene from lupine (Lupinus luteus) ⬇️

scientific article published on January 1, 1992

Oncogenes and cell proliferation

scientific article published on 01 February 2001

Origin and evolution of the chicken leukocyte receptor complex

scientific article

Origin of the 1918 pandemic H1N1 influenza A virus as studied by codon usage patterns and phylogenetic analysis

scientific article

Origins and evolution of the formin multigene family that is involved in the formation of actin filaments

scientific article

Overlapping genes in vertebrate genomes

scientific article

Phylogenetic analysis of a reported complementary DNA sequence

scholarly article

Phylogenetic analysis of mitochondrial outer membrane β-barrel channels.

scientific article

Phylogenetic analysis reveals wide distribution of globin X.

scientific article

Protein import complexes in the mitochondrial outer membrane of Amoebozoa representatives

scientific article published on 6 February 2016

RAB5A and TRAPPC6B are novel targets for Shiga toxin 2a inactivation in kidney epithelial cells

scientific article published on 18 March 2020

Regulatory affairs

scientific article published on 01 June 1996

Retrophylogenomics place tarsiers on the evolutionary branch of anthropoids

scientific article (publication date: 2013)

Searching for tRNA genes in DNA sequences--an IBM microcomputer program.

scientific article published in January 1990

Sequencing and phasing cancer mutations in lung cancers using a long-read portable sequencer

scientific article published on 27 June 2017

Serotyping dengue virus with isothermal amplification and a portable sequencer

scientific article

Spliceosomal small nuclear RNA genes in 11 insect genomes.

scientific article

Structural models for the design of novel antiviral agents against Greek Goat Encephalitis

scientific article

Surprisingly high number of Twintrons in vertebrates

scientific article (publication date: 28 January 2013)

Synonymous and nonsynonymous substitution distances are correlated in mouse and rat genes.

scientific article

TEclass--a tool for automated classification of unknown eukaryotic transposable elements.

scientific article

TRIM32 modulates pluripotency entry and exit by directly regulating Oct4 stability

scientific article

The H-Invitational Database (H-InvDB), a comprehensive annotation resource for human genes and transcripts

scientific article

The TOM Complex of Amoebozoans: the Cases of the Amoeba Acanthamoeba castellanii and the Slime Mold Dictyostelium discoideum.

scientific article

The biologist and the World Wide Web

scholarly article by Andreas D Baxevanis et al published 1 February 1996 in Current Opinion in Biotechnology

The emerging picture of the mitochondrial protein import complexes of Amoebozoa supergroup

scientific article published on 29 December 2017

The multi-comparative 2-n-way genome suite

scientific article published on 29 July 2020

Transcriptional interference by small transcripts in proximal promoter regions.

scientific article published on 4 January 2018

Transduplication resulted in the incorporation of two protein-coding sequences into the turmoil-1 transposable element of C. elegans

scientific article published on 8 October 2008

Transposable Elements: Classification, Identification, and Their Use As a Tool For Comparative Genomics

scientific article published on 01 January 2019

Transposable elements and their identification

scientific article

Transposable elements and vertebrate protein diversity.

scientific article

Transposable elements as a significant source of transcription regulating signals

article

Transposable elements significantly contributed to the core promoters in the human genome

scientific article published on 19 March 2019

U12 intron positions are more strongly conserved between animals and plants than U2 intron positions

scientific article

U12-type spliceosomal introns of Insecta.

scientific article published on 17 February 2012

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

scientific article published on January 1999

Visualizing sequence similarity of protein families

scientific article

Web alert

scientific article published on 01 June 2001

Web alert Environmental biotechnology Regulatory affairs

scientific article published on 01 June 1997

Web alert. Protein engineering

What is "junk" DNA, and what is it worth?

scientific article

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