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List of works by Eran Segal

A Discriminative Model for Identifying Spatial cis-Regulatory Modules

article

A Feature-Based Approach to Modeling Protein-DNA Interactions

article

A Minimalistic Resource Allocation Model to Explain Ubiquitous Increase in Protein Expression with Growth Rate

scientific article

A day in the life of the meta-organism: diurnal rhythms of the intestinal microbiome and its host

scientific article published on January 2015

A discriminative model for identifying spatial cis-regulatory modules

A feature-based approach to modeling protein-DNA interactions

scientific article

A framework for identifying regional outbreak and spread of COVID-19 from one-minute population-wide surveys

scientific article published on 09 April 2020

A genomic code for nucleosome positioning

scientific article

A minimalistic resource allocation model to explain ubiquitous increase in protein expression with growth rate

A module map showing conditional activity of expression modules in cancer

scientific article

A module of negative feedback regulators defines growth factor signaling

scientific article published on 25 February 2007

A reference map of potential determinants for the human serum metabolome

scientific article published on 11 November 2020

A shared architecture for promoters and enhancers

scientific article published in December 2014

A transcriptional profile of aging in the human kidney

scientific article

A transcriptional program mediating entry into cellular quiescence

scientific article

Anosmia and other SARS-CoV-2 positive test-associated symptoms, across three national, digital surveillance platforms as the COVID-19 pandemic and response unfolded: an observation study

scientific article published on 16 December 2020

Artificial Sweeteners Induce Glucose Intolerance by Altering the Gut Microbiota

Artificial sweeteners induce glucose intolerance by altering the gut microbiota

scientific article (publication date: 17 September 2014)

Axes of a revolution: challenges and promises of big data in healthcare

scientific article published on 13 January 2020

Bread Affects Clinical Parameters and Induces Gut Microbiome-Associated Personal Glycemic Responses

scientific article published on June 2017

Building an International Consortium for Tracking Coronavirus Health Status

scientific article published on 06 April 2020

Building an international consortium for tracking coronavirus health status

scientific article published on 02 June 2020

Cell lineage analysis of the mammalian female germline

scientific article

Comparative genetics. Systematic discovery of cap-independent translation sequences in human and viral genomes

scientific article published on 14 January 2016

Compensation for differences in gene copy number among yeast ribosomal proteins is encoded within their promoters

scientific article published on 18 October 2011

Competition between binding sites determines gene expression at low transcription factor concentrations

article

Computational prediction of RNA structural motifs involved in post-transcriptional regulatory processes

scientific article published in January 2011

Computational prediction of RNA structural motifs involved in posttranscriptional regulatory processes

scholarly article

Contribution of histone sequence preferences to nucleosome organization: proposed definitions and methodology

scientific article published on 30 November 2010

Core promoter sequence in yeast is a major determinant of expression level

scientific article published on 12 May 2015

Deciphering the rules by which 5'-UTR sequences affect protein expression in yeast

scientific article published on 5 July 2013

Decoding global gene expression programs in liver cancer by noninvasive imaging

scientific article

Determinants of nucleosome positioning

scientific article published on March 2013

Disruption of yeast forkhead-associated cell cycle transcription by oxidative stress

scientific article published on 15 September 2004

Dissecting splicing decisions and cell-to-cell variability with designed sequence libraries

scientific article published on 08 October 2019

Distinct modes of regulation by chromatin encoded through nucleosome positioning signals

scientific article

EGF decreases the abundance of microRNAs that restrain oncogenic transcription factors

scientific article

Editorial overview: Genome architecture and expression

scientific article published on April 2015

Efficient Bundle Sorting

Estimating cell depth from somatic mutations

scientific article

Evidence for an instructive mechanism of de novo methylation in cancer cells.

scientific article

Fixated on fixation: using ChIP to interrogate the dynamics of chromatin interactions

scientific article published on 21 November 2013

From DNA sequence to transcriptional behaviour: a quantitative approach

scientific article

From promoter sequence to expression

From signatures to models: understanding cancer using microarrays

scientific article

Functional characterization of the p53 “mutome”

scientific article published on 25 September 2018

Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs

scientific article

Gene expression divergence in yeast is coupled to evolution of DNA-encoded nucleosome organization

scientific article published on March 2009

GenoExp: a web tool for predicting gene expression levels from single nucleotide polymorphisms

scientific article published on 30 January 2015

Genome-wide measurement of RNA folding energies

scientific article

Genome-wide measurement of RNA secondary structure in yeast

scientific article

Genomics: ENCODE explained

scientific article

Geometric constraints on neuronal connectivity facilitate a concise synaptic adhesive code

scholarly article

Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples

scientific article published on 30 July 2015

High nucleosome occupancy is encoded at X-linked gene promoters in C. elegans

scientific article published on 22 December 2010

High nucleosome occupancy is encoded at human regulatory sequences

scientific article

High-throughput interrogation of programmed ribosomal frameshifting in human cells

scientific article published on 16 June 2020

Host genetics and microbiome associations through the lens of genome wide association studies

article

Host-parasite network structure is associated with community-level immunogenetic diversity

scientific article

How transcription factors identify regulatory sites in genomic sequence

scientific article published in January 2011

In pursuit of design principles of regulatory sequences

scientific article

InSite: a computational method for identifying protein-protein interaction binding sites on a proteome-wide scale

scientific article published on January 2007

Incorporating Nucleosomes into Thermodynamic Models of Transcription Regulation

Incorporating nucleosomes into thermodynamic models of transcription regulation

scientific article published on 18 May 2009

Inferring gene expression from ribosomal promoter sequences, a crowdsourcing approach

scientific article published on 15 August 2013

Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters

scientific article

Integrative analysis of the Caenorhabditis elegans genome by the modENCODE project

scientific article

Integrative genomic analysis by interoperation of bioinformatics tools in GenomeSpace

scientific article published on 18 January 2016

Involvement of a gut-retina axis in protection against dietary glycemia-induced age-related macular degeneration.

scientific article published on 15 May 2017

Joint learning from multiple types of genomic data.

scientific article

Journal club

Landscape and variation of RNA secondary structure across the human transcriptome

scientific article

Large-scale mapping of gene regulatory logic reveals context-dependent repression by transcriptional activators.

scientific article published on 13 December 2016

Long noncoding RNA as modular scaffold of histone modification complexes

scientific article

Longitudinal symptom dynamics of COVID-19 infection

scientific article published on 04 December 2020

Manipulating nucleosome disfavoring sequences allows fine-tune regulation of gene expression in yeast

scientific article

Massively Parallel Interrogation of the Effects of Gene Expression Levels on Fitness

scientific article

Measurements of the impact of 3' end sequences on gene expression reveal wide range and sequence dependent effects

scientific article

Microbiome and metabolome features of the cardiometabolic disease spectrum

scientific article published on 17 February 2022

Microbiota Diurnal Rhythmicity Programs Host Transcriptome Oscillations

scientific article

Microbiota-Modulated Metabolites Shape the Intestinal Microenvironment by Regulating NLRP6 Inflammasome Signaling.

scientific article published in December 2015

Modeling interactions between adjacent nucleosomes improves genome-wide predictions of nucleosome occupancy

scientific article published in June 2009

Module map of stem cell genes guides creation of epithelial cancer stem cells

scientific article published on April 2008

Molecular dissection of the genetic mechanisms that underlie expression conservation in orthologous yeast ribosomal promoters

scientific article

Monoubiquitinated H2B is associated with the transcribed region of highly expressed genes in human cells

scientific article

Motif module map reveals enforcement of aging by continual NF-kappaB activity

scientific article

New insights into replication origin characteristics in metazoans

scientific article published on February 2012

Noise in gene expression is coupled to growth rate

scientific article

Non-caloric artificial sweeteners and the microbiome: findings and challenges

scientific article published on April 2015

Nucleosome maps of the human cytomegalovirus genome reveal a temporal switch in chromatin organization linked to a major IE protein

scientific article published on 22 July 2013

Nucleosome sequence preferences influence in vivo nucleosome organization

scientific article published on August 2010

Overlapping codes within protein-coding sequences

scientific article

Persistent microbiome alterations modulate the rate of post-dieting weight regain

scientific article

Personalized Nutrition by Prediction of Glycemic Responses.

scientific article

Poly(dA:dT) tracts: major determinants of nucleosome organization

scientific article published on 07 February 2009

Predicting disease risk using bootstrap ranking and classification algorithms

scientific article

Predicting expression patterns from regulatory sequence in Drosophila segmentation

scientific article published on 2 January 2008

Prediction of gestational diabetes based on nationwide electronic health records

scientific article published on 13 January 2020

Preferentially quantized linker DNA lengths in Saccharomyces cerevisiae

scientific article

Probabilistic discovery of overlapping cellular processes and their regulation

scientific article

Probabilistic discovery of overlapping cellular processes and their regulation

Probabilistic hierarchical clustering for biological data

Probing the effect of promoters on noise in gene expression using thousands of designed sequences

scientific article

Promoter sequence determines the relationship between expression level and noise

scientific article

Promoters maintain their relative activity levels under different growth conditions

scientific article published on 29 October 2013

Proteome-wide prediction of acetylation substrates

scientific article

Publisher Correction: Building an international consortium for tracking coronavirus health status

scientific article published on 26 June 2020

Questioning the fetal microbiome illustrates pitfalls of low-biomass microbial studies

scientific article published in 2023

Rationale and design of a randomised controlled trial testing the effect of personalised diet in individuals with pre-diabetes or type 2 diabetes mellitus treated with metformin

scientific article published on 10 October 2020

Reconstruction of cell lineage trees in mice

scientific article

Revealing targeted therapy for human cancer by gene module maps.

scientific article

Reversal of aging by NFkappaB blockade

scientific article published on 26 December 2007

Robust prediction of expression differences among human individuals using only genotype information

scientific article

Sequence features of yeast and human core promoters that are predictive of maximal promoter activity

scientific article published on 17 April 2013

Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression

scientific article

Stemness, cancer and cancer stem cells

scientific article

Strengths and Weaknesses of Selected Modeling Methods Used in Systems Biology

Systematic Investigation of Transcription Factor Activity in the Context of Chromatin Using Massively Parallel Binding and Expression Assays

scientific article

Systematic dissection of the sequence determinants of gene 3' end mediated expression control

scientific article published on 15 April 2015

Systematic functional characterization of cis-regulatory motifs in human core promoters

scientific article published on 6 February 2008

Taking it Personally: Personalized Utilization of the Human Microbiome in Health and Disease

scientific article published in January 2016

Talking about cross-talk: the immune system and the microbiome

scientific article published on 17 March 2016

The DNA-encoded nucleosome organization of a eukaryotic genome

scientific article

The grammar of transcriptional regulation

scientific article published on 05 January 2014

The human tumor microbiome is composed of tumor type-specific intracellular bacteria

scientific article

The predictive power of the microbiome exceeds that of genome-wide association studies in the discrimination of complex human disease

scientific article published on 2 January 2020

The pros, cons, and many unknowns of probiotics

scientific article published on 06 May 2019

The road ahead in genetics and genomics

scientific article published on 24 August 2020

The role of site accessibility in microRNA target recognition

scientific article (publication date: October 2007)

Toward a systematic understanding of translational regulatory elements in human and viruses

scientific article published on 21 July 2016

Transient transcriptional responses to stress are generated by opposing effects of mRNA production and degradation

scientific article published on 14 October 2008

Transkingdom control of microbiota diurnal oscillations promotes metabolic homeostasis.

scientific article

Two DNA-encoded strategies for increasing expression with opposing effects on promoter dynamics and transcriptional noise

scientific article published on 12 February 2013

Understanding the transcriptome through RNA structure

scientific article published on 18 August 2011

Unraveling determinants of transcription factor binding outside the core binding site

scientific article published on 11 March 2015

Unraveling the determinants of microRNA mediated regulation using a massively parallel reporter assay

scientific article

Using expression profiles of Caenorhabditis elegans neurons to identify genes that mediate synaptic connectivity

scientific article

What controls nucleosome positions?

scientific article published on 10 July 2009

Widespread compensatory evolution conserves DNA-encoded nucleosome organization in yeast

scientific article

p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy

scientific article

Dieta na míru: převratný program pro zdraví a prevenci chorob

book edition published in 2019

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