Concept

One gene–one enzyme hypothesis

Related publications (20)

Transcriptomic analysis across liver diseases reveals disease-modulating activation of constitutive androstane receptor in cholestasis

Kristina Schoonjans, Jian Liu, Bhoomika Mathur

Background & Aims: Liver diseases are caused by many factors, such as genetics, nutrition, and viruses. Therefore, it is important to delineate transcriptomic changes that occur in various liver diseases. Methods: We performed high-throughput sequencing of ...

2020

Enzyme annotation for orphan and novel reactions using knowledge of substrate reactive sites

Vassily Hatzimanikatis, Ljubisa Miskovic, Noushin Hadadi, Marianne Seijo

Thousands of biochemical reactions with characterized activities are “orphan,” meaning they cannot be assigned to a specific enzyme, leaving gaps in metabolic pathways. Novel reactions predicted by pathway-generation tools also lack associated sequences, l ...

PNAS2019

Mechanistic insights into AMP-activated protein kinase-dependent gene expression

Caterina Collodet

AMP-activated protein kinase (AMPK) is a fundamental enzyme that controls energy homeostasis, through orchestrating the cellular response to a reduction in energy availability. Under conditions of cellular energy stress AMPK senses the decrease in ATP leve ...

EPFL2019

Evaluating the similarity of biochemical reactions and its uses for mapping novel and orphan reactions to protein sequences

Homa Mohammadi Peyhani

Recent advances in synthetic biochemistry have resulted in a wealth of de novo hypothetical enzymatic reactions that are not matched to protein-encoding genes, deeming them “orphan”. Nearly half of known metabolic enzymes are also orphan, leaving important ...

2018

Essential Nucleoid Associated Protein mIHF (Rv1388) Controls Virulence and Housekeeping Genes in Mycobacterium tuberculosis

Stewart Cole, Nina Theres Odermatt, Claudia Sala, Andrej Benjak

Tight control of gene expression is crucial for Mycobacterium tuberculosis to adapt to the changing environments encountered when infecting or exiting human cells. While three nucleoid associated proteins (NAPs) EspR, HupB and Lsr2 have been investigated, ...

NATURE PUBLISHING GROUP2018

Rounding Up Natural Gene Expression Variation during Development

Bart Deplancke, Sebastian Martin Waszak

Molecular insights into the genetic control of development have been mainly derived from single gene mutant studies. Francesconi and Lehner (2013) report now in Nature a genome-wide map of natural sequence variants that affect the temporal expression dynam ...

Elsevier2013

A chemostat array enables the spatio-temporal analysis of the yeast proteome

Michaël Unser, Felix Naef, Sebastian Maerkl, Ricard Delgado Gonzalo, Nicolas Dénervaud, Arun Stephen Rajkumar, Johannes Becker

Observing cellular responses to perturbations is central to generating and testing hypotheses in biology. We developed a massively parallel microchemostat array capable of growing and observing 1,152 yeast-GFP strains on the single-cell level with 20 min t ...

National Academy of Sciences2013

Analysis of the Pigment Cell Specific Gene MART-1/Melan-A/mlana

Iraz Toprak Aydin

Pigmentation is a complex process that provides many diverse benefits for the organism. Pigment production takes place in the pigment cell lineage in dedicated organelles called melanosomes. Several proteins are specifically recruited to melanosomes for th ...

EPFL2010

Functional analysis of protein kinase CK2 of the human malaria parasite Plasmodium falciparum

Protein kinase CK2 (casein kinase 2) is a eukaryotic serine/threonine protein kinase with multiple substrates and roles in diverse cellular processes, including differentiation, proliferation, and translation. The mammalian holoenzyme consists of two catal ...

American Society for Microbiology2009

Identification of parameters and structure of piecewise affine models of genetic networks

Giancarlo Ferrari Trecate

In this paper we consider piecewise affine models of genetic regulatory networks proposed by Glass and Kaufmann in the 70's and discuss a method for their identification. These systems have specific features that must be preserved by the identification pro ...

2009

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