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List of works by Amos Tanay

A global view of pleiotropy and phenotypically derived gene function in yeast

scientific article published on 29 March 2005

A global view of the selection forces in the evolution of yeast cis-regulation

scientific article published on May 2004

A probabilistic methodology for integrating knowledge and experiments on biological networks

scientific article published in March 2006

A single-cell view on alga-virus interactions reveals sequential transcriptional programs and infection states

scientific article published on 20 May 2020

A systematic approach to understand the functional consequences of non-protein coding risk regions

scientific article published on 23 January 2010

Addiction of t(8;21) and inv(16) acute myeloid leukemia to native RUNX1.

scientific article published on 19 September 2013

BLUEPRINT to decode the epigenetic signature written in blood.

scientific article

Capturing pairwise and multi-way chromosomal conformations using chromosomal walks.

scientific article published on 30 November 2016

Cell-Autonomous Function of Runx1 Transcriptionally Regulates Mouse Megakaryocytic Maturation ⬇️

scientific article published on May 23, 2013

Cell-cycle dynamics of chromosomal organization at single-cell resolution.

scientific article

Chromosomal domains: epigenetic contexts and functional implications of genomic compartmentalization

scientific article published on 14 February 2013

Cnidarian Cell Type Diversity and Regulation Revealed by Whole-Organism Single-Cell RNA-Seq

scientific article published on 31 May 2018

Cohesin-mediated interactions organize chromosomal domain architecture

scientific article published on November 2013

Combgap Promotes Ovarian Niche Development and Chromatin Association of EcR-Binding Regions in BR-C.

scientific article

Comparative Hi-C reveals that CTCF underlies evolution of chromosomal domain architecture

scientific article published on 26 February 2015

Comparative analysis of DNA replication timing reveals conserved large-scale chromosomal architecture.

scientific article

Conservation and evolvability in regulatory networks: the evolution of ribosomal regulation in yeast

scientific article

Constitutive nucleosome depletion and ordered factor assembly at the GRP78 promoter revealed by single molecule footprinting

scientific article published in September 2006

Cooperativity, specificity, and evolutionary stability of Polycomb targeting in Drosophila

scientific article published on 2 October 2014

Corrigendum: Derivation of novel human ground state naive pluripotent stem cells

scientific article published on 01 April 2015

Corrigendum: Deterministic direct reprogramming of somatic cells to pluripotency

scientific article published on 01 April 2015

Corrigendum: p53 is essential for DNA methylation homeostasis in naïve embryonic stem cells, and its loss promotes clonal heterogeneity

scientific article published on 01 October 2018

DNA methylation landscapes of 1538 breast cancers reveal a replication-linked clock, epigenomic instability and cis-regulation

scientific article published on 13 September 2021

DNA methylation programming and reprogramming in primate embryonic stem cells.

scientific article

Derivation of novel human ground state naive pluripotent stem cells

scientific article published on 30 October 2013

Deterministic Somatic Cell Reprogramming Involves Continuous Transcriptional Changes Governed by Myc and Epigenetic-Driven Modules

scientific article published on 13 December 2018

Deterministic direct reprogramming of somatic cells to pluripotency

scientific article

Discovering statistically significant biclusters in gene expression data

scientific article

Dissecting Immune Circuits by Linking CRISPR-Pooled Screens with Single-Cell RNA-Seq

scientific article published on December 2016

Dissecting cellular crosstalk by sequencing physically interacting cells

scientific article published on 09 March 2020

Donor cell leukemia: reappearance of gene mutations in donor cells - more than an incidental phenomenon?

scientific article published on 07 May 2020

Drosophila Functional Elements Are Embedded in Structurally Constrained Sequences ⬇️

scientific article published on May 30, 2013

Dynamic and static maintenance of epigenetic memory in pluripotent and somatic cells

scientific article

Dynamic combinatorial interactions of RUNX1 and cooperating partners regulates megakaryocytic differentiation in cell line models ⬇️

scientific article published on October 19, 2010

Dysfunctional CD8 T Cells Form a Proliferative, Dynamically Regulated Compartment within Human Melanoma

scientific article published on 27 December 2018

Dysfunctional CD8 T Cells Form a Proliferative, Dynamically Regulated Compartment within Human Melanoma

scientific article published on 01 April 2020

EXPANDER--an integrative program suite for microarray data analysis

scientific article

Early metazoan cell type diversity and the evolution of multicellular gene regulation

article

Epigenetic polymorphism and the stochastic formation of differentially methylated regions in normal and cancerous tissues

scientific article published on 14 October 2012

Evolution and selection in yeast promoters: analyzing the combined effect of diverse transcription factor binding sites

scientific article

Expander: from expression microarrays to networks and functions

scientific article

Extensive low-affinity transcriptional interactions in the yeast genome

scientific article

Frequent switching of Polycomb repressive marks and DNA hypermethylation in the PC3 prostate cancer cell line

scholarly article

Functional anatomy of polycomb and trithorax chromatin landscapes in Drosophila embryos

scientific article

Functional enhancers at the gene-poor 8q24 cancer-linked locus.

scientific article published on 14 August 2009

Global DNA methylation reflects spatial heterogeneity and molecular evolution of lung adenocarcinomas

article

H2A.Z Maintenance during Mitosis Reveals Nucleosome Shifting on Mitotically Silenced Genes ⬇️

scientific article published on September 24, 2010

Hyperconserved CpG domains underlie Polycomb-binding sites

scholarly article

Hypomethylation marks enhancers within transposable elements

scientific article published on 01 July 2013

Inferring Divergence of Context-Dependent Substitution Rates in Drosophila Genomes with Applications to Comparative Genomics ⬇️

scientific article published on February 1, 2012

Integrative analysis of genome-wide experiments in the context of a large high-throughput data compendium

scientific article

Intratumor DNA methylation heterogeneity reflects clonal evolution in aggressive prostate cancer.

scientific article published on 24 July 2014

LifeTime and improving European healthcare through cell-based interceptive medicine

scientific article published on 07 September 2020

MARS-seq2.0: an experimental and analytical pipeline for indexed sorting combined with single-cell RNA sequencing

scientific article published on 17 May 2019

Massively parallel single-cell RNA-seq for marker-free decomposition of tissues into cell types

scientific article

MetaCell: analysis of single-cell RNA-seq data using K-nn graph partitions

scientific article published on 11 October 2019

Minreg: inferring an active regulator set.

scientific article

Modeling and analysis of heterogeneous regulation in biological networks

scientific article published in January 2004

Multilevel modeling and inference of transcription regulation

scientific article

Multiscale 3D Genome Rewiring during Mouse Neural Development

scientific article published on October 2017

Prediction of acute myeloid leukaemia risk in healthy individuals

scientific article published in Nature

Primate CpG islands are maintained by heterogeneous evolutionary regimes involving minimal selection

scientific article

Probabilistic modeling of Hi-C contact maps eliminates systematic biases to characterize global chromosomal architecture

scientific article published on 16 October 2011

Publisher Correction: LifeTime and improving European healthcare through cell-based interceptive medicine

scientific article published on 17 March 2021

Quantification of protein half-lives in the budding yeast proteome

scientific article

Recurrent deletions in clonal hematopoiesis are driven by microhomology-mediated end joining

scientific article published on 28 April 2021

Revealing modularity and organization in the yeast molecular network by integrated analysis of highly heterogeneous genomewide data

scientific article

Robust 4C-seq data analysis to screen for regulatory DNA interactions.

scientific article

Scaling single-cell genomics from phenomenology to mechanism

scientific article published on January 2017

Sequence context affects the rate of short insertions and deletions in flies and primates

scientific article published on 21 February 2008

Single cell dissection of plasma cell heterogeneity in symptomatic and asymptomatic myeloma

scientific article published on 06 December 2018

Single-cell Hi-C for genome-wide detection of chromatin interactions that occur simultaneously in a single cell.

scientific article

Single-cell Hi-C reveals cell-to-cell variability in chromosome structure

scientific article

Single-cell analysis of clonal maintenance of transcriptional and epigenetic states in cancer cells

scientific article published on 29 June 2020

Single-cell characterization of haematopoietic progenitors and their trajectories in homeostasis and perturbed haematopoiesis

scientific article published on 18 June 2018

Single-cell epigenomics: techniques and emerging applications

scientific article

Suppressors and activators of JAK-STAT signaling at diagnosis and relapse of acute lymphoblastic leukemia in Down syndrome

scientific article published in May 2017

The EXPANDER Integrated Platform for Transcriptome Analysis

scientific article published on 14 May 2019

The Spectrum and Regulatory Landscape of Intestinal Innate Lymphoid Cells Are Shaped by the Microbiome

scientific article

The mutation spectrum in genomic late replication domains shapes mammalian GC content

scientific article

Three-dimensional folding and functional organization principles of the Drosophila genome

scientific article

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

scientific article published on 24 November 2015

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors

scientific article

UMI-4C for quantitative and targeted chromosomal contact profiling.

scientific article published on 04 July 2016

Voices in methods development

scientific article published on 01 October 2019

Widespread compensatory evolution conserves DNA-encoded nucleosome organization in yeast

scientific article

p53 is essential for DNA methylation homeostasis in naïve embryonic stem cells, and its loss promotes clonal heterogeneity

scientific article published on 12 June 2017

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