List of works - Krzysztof Ginalski

Dbf4 recruitment by forkhead transcription factors defines an upstream rate-limiting step in determining origin firing timing

scientific article published on 12 January 2018

AutoMotif Server for prediction of phosphorylation sites in proteins using support vector machine: 2007 update

scientific article published on 8 November 2007

Prediction of signal peptides in protein sequences by neural networks.

scientific article published on 26 May 2008

Raptor protein contains a caspase-like domain

scientific article published in October 2004

Cut-and-paste transposons in fungi with diverse lifestyles

scientific article

Histone H1 Variants in Arabidopsis Are Subject to Numerous Post-Translational Modifications, Both Conserved and Previously Unknown in Histones, Suggesting Complex Functions of H1 in Plants

scientific article published on 28 January 2016

Probabilistic approach to predicting substrate specificity of methyltransferases

scientific article

Mutations in the yeast mrf1 gene encoding mitochondrial release factor inhibit translation on mitochondrial ribosomes

scientific article

Ssb1 and Ssb2 cooperate to regulate mouse hematopoietic stem and progenitor cells by resolving replicative stress.

scientific article

i-BLESS is an ultra-sensitive method for detection of DNA double-strand breaks

scientific article published on 31 October 2018

DIRS and Ngaro Retrotransposons in Fungi

scientific article

Predicting double-strand DNA breaks using epigenome marks or DNA at kilobase resolution

scientific article published on 15 March 2018

A Rough Set-Based Model of HIV-1 Reverse Transcriptase Resistome

scientific article

Crystal structure of the ApbE protein (TM1553) from Thermotoga maritima at 1.58 Å resolution

article

Virtual high throughput screening using combined random forest and flexible docking

scientific article

Overactive BRCA1 Affects Presenilin 1 in Induced Pluripotent Stem Cell-Derived Neurons in Alzheimer's Disease.

scientific article published in January 2018

TOS1 is circularly permuted 1,3-beta-glucanase

scientific article

Phylogeny-Based Systematization of Arabidopsis Proteins with Histone H1 Globular Domain.

scientific article

Sequence-structure mapping errors in the PDB: OB-fold domains

scientific article published on 7 May 2004

Five eIF4E isoforms from Arabidopsis thaliana are characterized by distinct features of cap analogs binding

scientific article published on 18 November 2014

Towards Engineering Novel PE-Based Immunotoxins by Targeting Them to the Nucleus

scientific article

Novel transmembrane lipases of alpha/beta hydrolase fold

scientific article published on 17 February 2011

Systematic classification of the His-Me finger superfamily

scientific article published on 10 October 2017

Hypermethylation of TRIM59 and KLF14 Influences Cell Death Signaling in Familial Alzheimer's Disease.

scientific article published on 4 April 2018

Structural, Biochemical, and Evolutionary Characterizations of Glyoxylate/Hydroxypyruvate Reductases Show Their Division into Two Distinct Subfamilies

scientific article

Comparative genomic analysis of Staphylococcus lugdunensis shows a closed pan-genome and multiple barriers to horizontal gene transfer

article

Novel SARS unique AdoMet-dependent methyltransferase

scientific article published on 16 October 2006

DCC proteins: a novel family of thiol-disulfide oxidoreductases

scientific article published in July 2004

Bacillus subtilis YkuK protein is distantly related to RNase H.

scientific article published in October 2005

ECEPE proteins: a novel family of eukaryotic cysteine proteinases

scientific article published in October 2004

Exome scale map of genetic alterations promoting metastasis in colorectal cancer

scientific article published on 19 September 2018

A heterozygous mutation in GOT1 is associated with familial macro-aspartate aminotransferase

scientific article published on 14 July 2017

In silico prediction of SARS protease inhibitors by virtual high throughput screening

scientific article published in April 2007

Uncharacterized DUF1574 leptospira proteins are SGNH hydrolases

scientific article

HSV-1 UL45 encodes a carbohydrate binding C-type lectin protein

scientific article

Biochemical and structural bioinformatics studies of fungal CutA nucleotidyltransferases explain their unusual specificity toward CTP and increased tendency for cytidine incorporation at the 3'-terminal positions of synthesized tails

scientific article

HarmonyDOCK: the structural analysis of poses in protein-ligand docking

scientific article published on 20 November 2010

The C2H2 zinc finger transcription factors are likely targets for Ni(II) toxicity

scientific article published on 25 August 2011

qDSB-Seq is a general method for genome-wide quantification of DNA double-strand breaks using sequencing

scientific article published on 24 May 2019

Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase

article published in 2018

DUF1613 is a novel family of eucaryotic AdoMet-dependent methyltransferases

scientific article

MRX Increases Chromatin Accessibility at Stalled Replication Forks to Promote Nascent DNA Resection and Cohesin Loading

scientific article published on 20 November 2019

Protein domain of unknown function DUF1023 is an alpha/beta hydrolase

scientific article published in April 2005

Poly-Saturated Dolichols from Filamentous Fungi Modulate Activity of Dolichol-Dependent Glycosyltransferase and Physical Properties of Membranes

scientific article published on 21 June 2019

Predicting proteome dynamics using gene expression data

scientific article published in Scientific Reports

Modelling of potentially promising SARS protease inhibitors

Correction to: Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase

scientific article published on 16 July 2019

Glyoxylate reductase as versatile enzymatic system for pharmaceutical and medical use

Transposable elements contribute to fungal genes and impact fungal lifestyle

article

Topoisomerase 1 prevents replication stress at R-loop-enriched transcription termination sites

scientific article published on 07 August 2020

List of works by Krzysztof Ginalski

Dbf4 recruitment by forkhead transcription factors defines an upstream rate-limiting step in determining origin firing timing

AutoMotif Server for prediction of phosphorylation sites in proteins using support vector machine: 2007 update

Prediction of signal peptides in protein sequences by neural networks.

Raptor protein contains a caspase-like domain

Cut-and-paste transposons in fungi with diverse lifestyles

Histone H1 Variants in Arabidopsis Are Subject to Numerous Post-Translational Modifications, Both Conserved and Previously Unknown in Histones, Suggesting Complex Functions of H1 in Plants

Probabilistic approach to predicting substrate specificity of methyltransferases

Mutations in the yeast mrf1 gene encoding mitochondrial release factor inhibit translation on mitochondrial ribosomes

Ssb1 and Ssb2 cooperate to regulate mouse hematopoietic stem and progenitor cells by resolving replicative stress.

i-BLESS is an ultra-sensitive method for detection of DNA double-strand breaks

DIRS and Ngaro Retrotransposons in Fungi

Predicting double-strand DNA breaks using epigenome marks or DNA at kilobase resolution

A Rough Set-Based Model of HIV-1 Reverse Transcriptase Resistome

Crystal structure of the ApbE protein (TM1553) from Thermotoga maritima at 1.58 Å resolution

Virtual high throughput screening using combined random forest and flexible docking

Overactive BRCA1 Affects Presenilin 1 in Induced Pluripotent Stem Cell-Derived Neurons in Alzheimer's Disease.

TOS1 is circularly permuted 1,3-beta-glucanase

Phylogeny-Based Systematization of Arabidopsis Proteins with Histone H1 Globular Domain.

Sequence-structure mapping errors in the PDB: OB-fold domains

Five eIF4E isoforms from Arabidopsis thaliana are characterized by distinct features of cap analogs binding

Towards Engineering Novel PE-Based Immunotoxins by Targeting Them to the Nucleus

Novel transmembrane lipases of alpha/beta hydrolase fold

Systematic classification of the His-Me finger superfamily

Hypermethylation of TRIM59 and KLF14 Influences Cell Death Signaling in Familial Alzheimer's Disease.

Structural, Biochemical, and Evolutionary Characterizations of Glyoxylate/Hydroxypyruvate Reductases Show Their Division into Two Distinct Subfamilies

Comparative genomic analysis of Staphylococcus lugdunensis shows a closed pan-genome and multiple barriers to horizontal gene transfer

Novel SARS unique AdoMet-dependent methyltransferase

DCC proteins: a novel family of thiol-disulfide oxidoreductases

Bacillus subtilis YkuK protein is distantly related to RNase H.

ECEPE proteins: a novel family of eukaryotic cysteine proteinases

Exome scale map of genetic alterations promoting metastasis in colorectal cancer

A heterozygous mutation in GOT1 is associated with familial macro-aspartate aminotransferase

In silico prediction of SARS protease inhibitors by virtual high throughput screening

Uncharacterized DUF1574 leptospira proteins are SGNH hydrolases

HSV-1 UL45 encodes a carbohydrate binding C-type lectin protein

Biochemical and structural bioinformatics studies of fungal CutA nucleotidyltransferases explain their unusual specificity toward CTP and increased tendency for cytidine incorporation at the 3'-terminal positions of synthesized tails

HarmonyDOCK: the structural analysis of poses in protein-ligand docking

The C2H2 zinc finger transcription factors are likely targets for Ni(II) toxicity

qDSB-Seq is a general method for genome-wide quantification of DNA double-strand breaks using sequencing

Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase

DUF1613 is a novel family of eucaryotic AdoMet-dependent methyltransferases

MRX Increases Chromatin Accessibility at Stalled Replication Forks to Promote Nascent DNA Resection and Cohesin Loading

Protein domain of unknown function DUF1023 is an alpha/beta hydrolase

Poly-Saturated Dolichols from Filamentous Fungi Modulate Activity of Dolichol-Dependent Glycosyltransferase and Physical Properties of Membranes

Predicting proteome dynamics using gene expression data

Modelling of potentially promising SARS protease inhibitors

Correction to: Classification, substrate specificity and structural features of D-2-hydroxyacid dehydrogenases: 2HADH knowledgebase

Glyoxylate reductase as versatile enzymatic system for pharmaceutical and medical use

Transposable elements contribute to fungal genes and impact fungal lifestyle

Topoisomerase 1 prevents replication stress at R-loop-enriched transcription termination sites