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List of works by Zoya Ignatova

A Minimal Model of Ribosome Allocation Dynamics Captures Trade-offs in Expression between Endogenous and Synthetic Genes.

scientific article published on 25 April 2016

A Novel Caenorhabditis Elegans Proteinopathy Model Shows Changes in mRNA Translational Frameshifting During Aging

scientific article published on 01 January 2019

A flexible approach to assess fluorescence decay functions in complex energy transfer systems

scientific article

A method for direct measurement of protein stability in vivo

scientific article

A rare heterozygous TREM2 coding variant identified in familial clustering of dementia affects an intrinsically disordered protein region and function of TREM2

scientific article published on 15 September 2019

ATF4 couples MYC-dependent translational activity to bioenergetic demands during tumour progression

scientific article published on 01 July 2019

Absolute quantification of translational regulation and burden using combined sequencing approaches

scientific article published on 03 May 2019

Aggregation of a slow-folding mutant of a beta-clam protein proceeds through a monomeric nucleus

scientific article

Alteration of protein function by a silent polymorphism linked to tRNA abundance

scientific article

An Expanded CAG Repeat in Huntingtin Causes +1 Frameshifting

scientific article published on 5 July 2016

An autonomous DNA model for finite state automata

scientific article published in January 2009

Architecture of polyglutamine-containing fibrils from time-resolved fluorescence decay

scientific article published on 4 August 2014

Assessing cell-specific effects of genetic variations using tRNA microarrays

scientific article published on 16 July 2019

Assessing polyglutamine conformation in the nucleating event by molecular dynamics simulations

scientific article published on 16 August 2012

Bacteria differently regulate mRNA abundance to specifically respond to various stresses.

scientific article published in March 2016

Biomolecular autonomous solution of the Hamiltonian path problem via hairpin formation

scientific article published on 01 January 2005

CD98hc (SLC3A2) sustains amino acid and nucleotide availability for cell cycle progression

scientific article published on 01 October 2019

Ca2+ is a cofactor required for membrane transport and maturation and is a yield-determining factor in high cell density penicillin amidase production

scientific article published in March 2005

Chapter 3: A fluorescent window into protein folding and aggregation in cells

scientific article

Characterizing Genetic Parts and Devices Using RNA Sequencing

scientific article published on 01 January 2021

Codon Resolution Analysis of Ribosome Profiling Data

scientific article published in 2021

Competition for amino acid flux among translation, growth and detoxification in bacteria.

scientific article

Computational Aminoacyl-tRNA Synthetase Library Design for Photocaged Tyrosine. ⬇️

scientific article published on 11 May 2019

Computational genes: a tool for molecular diagnosis and therapy of aberrant mutational phenotype

scientific article

Constraints on error rate revealed by computational study of G•U tautomerization in translation

scientific article published on 18 November 2021

Crystallization and X-ray structure analysis of a thermostable penicillin G acylase from Alcaligenes faecalis

scientific article published on 15 February 2012

DNA Aptamers for the Malignant Transformation Marker CD24

scientific article published on 08 November 2018

Depletion of cognate charged transfer RNA causes translational frameshifting within the expanded CAG stretch in huntingtin

scientific article published on 24 January 2013

Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation

scientific article

Discharging tRNAs: a tug of war between translation and detoxification in Escherichia coli.

scientific article published on 9 August 2016

Dynamic mA methylation facilitates mRNA triaging to stress granules

scientific article published on 03 July 2018

Effect of mRNA/tRNA mutations on translation speed: Implications for human diseases

scientific article published in September 2023

Effect of the increased stability of the penicillin amidase mRNA on the protein expression levels.

scientific article

Effects of osmolytes on protein folding and aggregation in cells.

scientific article

Efficient translation initiation dictates codon usage at gene start

scientific article published on 18 June 2013

Emerging roles of tRNA in adaptive translation, signalling dynamics and disease

scientific article published on 23 December 2014

Engineered tRNAs suppress nonsense mutations in cells and in vivo

scientific article published in June 2023

Estimation of peptide elongation times from ribosome profiling spectra

scientific article published on 21 May 2021

Examining tRNA 3'-ends in Escherichia coli: A teamwork between CCA-adding enzyme, RNase T and RNase R.

scientific article published on 27 November 2017

Expanding the Scope of Orthogonal Translation with Pyrrolysyl-tRNA Synthetases Dedicated to Aromatic Amino Acids

scientific article published on 25 September 2020

Exploiting the features of the finite state automata for biomolecular computing

scientific article published on January 2009

Extended polyglutamine tracts cause aggregation and structural perturbation of an adjacent beta barrel protein

scientific article

Fine-tuning the metabolic rewiring and adaptation of translational machinery during an epithelial-mesenchymal transition in breast cancer cells

scientific article published on 19 July 2020

Folding at the birth of the nascent chain: coordinating translation with co-translational folding ⬇️

scientific article published on November 24, 2010

Fragments of pro-peptide activate mature penicillin amidase of Alcaligenes faecalis

scientific article published in December 2003

From the test tube to the cell: exploring the folding and aggregation of a beta-clam protein

scientific article

GPER functions as a tumor suppressor in triple-negative breast cancer cells

scientific article published on 20 February 2014

Generic algorithm to predict the speed of translational elongation: implications for protein biogenesis

scientific article

Genome-wide effects of the antimicrobial peptide apidaecin on translation termination in bacteria

scientific article published on 08 October 2020

Germline AGO2 mutations impair RNA interference and human neurological development

scientific article published on 16 November 2020

Global and local depletion of ternary complex limits translational elongation

scientific article published on 31 March 2010

Global assessment of the integrated stress response in CF patient-derived airway and intestinal tissues

scientific article published on 22 May 2020

Growth-Rate Dependent Regulation of tRNA Level and Charging in Bacillus licheniformis

scientific article published on 13 September 2017

Immunoprecipation Assay to Quantify the Amount of tRNAs associated with Their Interacting Proteins in Tissue and Cell Culture

scientific article published on 20 February 2022

Improved A. faecalis penicillin amidase mutant retains the thermodynamic and pH stability of the wild type enzyme

scientific article published in April 2010

Improvement of posttranslational bottlenecks in the production of penicillin amidase in recombinant Escherichia coli strains

scientific article

Improving the Robustness of Engineered Bacteria to Nutrient Stress Using Programmed Proteolysis

scientific article published on 18 March 2022

In-cell aggregation of a polyglutamine-containing chimera is a multistep process initiated by the flanking sequence

scientific article

Inhibition of protein aggregation in vitro and in vivo by a natural osmoprotectant

scholarly article

Insights into the adaptive response of Arabidopsis thaliana to prolonged thermal stress by ribosomal profiling and RNA-Seq

scientific article

Interplay between polymerase II- and polymerase III-assisted expression of overlapping genes

scientific article published on 7 October 2013

Invariable stoichiometry of ribosomal proteins in mouse brain tissues with aging

scientific article published on 21 October 2019

Length-dependent translation of messenger RNA by ribosomes

scientific article published on 21 April 2011

Mapping the non-standardized biases of ribosome profiling

scientific article published on 29 August 2015

Monitoring protein stability and aggregation in vivo by real-time fluorescent labeling

scholarly article

Monitoring protein stability in vivo

scientific article

Natural osmolytes remodel the aggregation pathway of mutant huntingtin exon 1

scientific article published on 20 February 2011

Not1 and Not4 inversely determine mRNA solubility that sets the dynamics of co-translational events

scientific article published on 20 February 2023

Not4 and Not5 modulate translation elongation by Rps7A ubiquitination, Rli1 moonlighting, and condensates that exclude eIF5A

scientific article published in August 2021

Octa-repeat domain of the mammalian prion protein mRNA forms stable A-helical hairpin structure rather than G-quadruplexes

Optimization of translation profiles enhances protein expression and solubility

scientific article published on 12 May 2015

Orthogonal cross-seeding: an approach to explore protein aggregates in living cells

scientific article

Polyglutamine expansion alters the dynamics and molecular architecture of aggregates in dentatorubropallidoluysian atrophy

scientific article published on December 2011

Polymerase III transcription is necessary for T cell priming by dendritic cells

scientific article published on 21 October 2019

Positive epistasis between disease-causing missense mutations and silent polymorphism with effect on mRNA translation velocity

scientific article published on 26 January 2021

Pro-sequence and Ca2+-binding: implications for folding and maturation of Ntn-hydrolase penicillin amidase from E. coli

scientific article

Probing dimensionality beyond the linear sequence of mRNA.

scientific article

Quantifying the 'escapers' among RNA species

scientific article published in December 2015

Repurposing tRNAs for nonsense suppression

scientific article published on 22 June 2021

Reversible and rapid transfer-RNA deactivation as a mechanism of translational repression in stress.

scientific article

Rewiring host activities for synthetic circuit production: a translation view

scientific article

RqcH and RqcP catalyze processive poly-alanine synthesis in a reconstituted ribosome-associated quality control system

scientific article published on 01 August 2021

Secondary Structure across the Bacterial Transcriptome Reveals Versatile Roles in mRNA Regulation and Function

scientific article published on 23 October 2015

Silent mutations in sight: co-variations in tRNA abundance as a key to unravel consequences of silent mutations.

scientific article

Slowing ribosome velocity restores folding and function of mutant CFTR

scientific article published on 01 December 2019

Solution Structure and Conformational Flexibility of a Polyketide Synthase Module

scientific article published on 27 December 2021

Somatic expression of unc-54 and vha-6 mRNAs declines but not pan-neuronal rgef-1 and unc-119 expression in aging Caenorhabditis elegans

scientific article

Stable polyglutamine dimers can contain β-hairpins with interdigitated side chains-but not α-helices, β-nanotubes, β-pseudohelices, or steric zippers

scientific article

Structural Basis for Bacterial Ribosome-Associated Quality Control by RqcH and RqcP

scientific article published on 19 November 2020

Structural basis of ABCF-mediated resistance to pleuromutilin, lincosamide, and streptogramin A antibiotics in Gram-positive pathogens

scientific article published on 11 June 2021

Structure of <i>Escherichia coli</i> heat shock protein Hsp15 in complex with the ribosomal 50S subunit bearing peptidyl-tRNA

scientific article published in 2022

Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1

scientific article published on 03 September 2018

Survival Advantage of Lymphadenectomy in Patients with Ovarian Cancer

scientific article published on 26 April 2022

Systematic identification of tRNAome and its dynamics in Lactococcus lactis

scientific article

Systematic probing of the bacterial RNA structurome to reveal new functions.

scientific article published on February 2017

Tailored Synthetic sRNAs Dynamically Tune Multilayer Genetic Circuits

scientific article published on 18 August 2023

The Effect of Synonymous Single-Nucleotide Polymorphisms on an Atypical Cystic Fibrosis Clinical Presentation

scientific article published on 27 December 2020

The RNA-binding protein Hfq is important for ribosome biogenesis and affects translation fidelity.

scientific article

Timing during translation matters: synonymous mutations in human pathologies influence protein folding and function

scientific article published on 31 July 2018

Towards the characterization of the hidden world of small proteins in Staphylococcus aureus, a proteogenomics approach

scientific article published on 01 June 2021

Trade-offs between tRNA abundance and mRNA secondary structure support smoothing of translation elongation rate.

scientific article published on 12 March 2015

Transient ribosomal attenuation coordinates protein synthesis and co-translational folding

scientific article published on 8 February 2009

Tuning innate immunity by translation

scientific article

Unusual signal peptide directs penicillin amidase from Escherichia coli to the Tat translocation machinery

scientific article published in February 2002

eIF3 Associates with 80S Ribosomes to Promote Translation Elongation, Mitochondrial Homeostasis, and Muscle Health

scientific article published on 19 June 2020

mRNAs sequestered in stress granules recover nearly completely for translation

scientific article published in January 2022

smORFer: a modular algorithm to detect small ORFs in prokaryotes

scientific article published on 7 September 2021

tRNA concentration fine tunes protein solubility.

scientific article

tRNA epitranscriptome determines pathogenicity of the opportunistic pathogen <i>Pseudomonas aeruginosa</i>

scientific article published on 7 March 2024

tRNA overexpression rescues peripheral neuropathy caused by mutations in tRNA synthetase

scientific article published on 3 September 2021

tRNAArg-Derived Fragments Can Serve as Arginine Donors for Protein Arginylation

scientific article published on 11 June 2020

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