Search filters

List of works by Eric D. Siggia

A 3D model of a human epiblast reveals BMP4-driven symmetry breaking

scientific article published on 01 July 2019

A Balance between Secreted Inhibitors and Edge Sensing Controls Gastruloid Self-Organization

scientific article

A Geometric Model of Stripe Refinement

scientific article published on May 2017

A case study of evolutionary computation of biochemical adaptation

scientific article published on 24 June 2008

A method to recapitulate early embryonic spatial patterning in human embryonic stem cells

scientific article

A microfluidic device for temporally controlled gene expression and long-term fluorescent imaging in unperturbed dividing yeast cells

scientific article

A probabilistic method to detect regulatory modules

scientific article published in January 2003

A wave of WNT signaling balanced by secreted inhibitors controls primitive streak formation in micropattern colonies of human embryonic stem cells

scientific article published on 25 March 2019

Adaptive temperature compensation in circadian oscillations

scientific article

Analysis of combinatorial cis-regulation in synthetic and genomic promoters

scientific article

Author Correction: Self-organization of a human organizer by combined Wnt and Nodal signalling

scientific article published in Nature

Building a dictionary for genomes: identification of presumptive regulatory sites by statistical analysis

scientific article published on August 2000

Coherence and timing of cell cycle start examined at single-cell resolution.

scientific article

Comment on "Controlling long-term signaling: receptor dynamics determine attenuation and refractory behavior of the TGF-β pathway"-Smad2/3 activity does not predict the dynamics of transcription.

scientific article published on 23 September 2014

Comment on dynamical theories of the liquid-glass transition

scientific article published on 01 November 1985

Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo

scientific article

Computational methods for transcriptional regulation

scientific article

Connecting protein structure with predictions of regulatory sites.

scientific article

Conservation of regulatory elements between two species of Drosophila

scientific article

Correction: Origin of Irreversibility of Cell Cycle Start in Budding Yeast.

scientific article published on 21 July 2011

Cross-species comparison of Drosophila male accessory gland protein genes

scientific article

Cross-species comparison significantly improves genome-wide prediction of cis-regulatory modules in Drosophila

scientific article

Decisions on the fly in cellular sensory systems

scientific article published on 09 September 2013

Deriving structure from evolution: metazoan segmentation

scientific article

Developmental regulatory bits

scientific article published on 4 November 2008

Diffusion in inhomogeneous media: theory and simulations applied to whole cell photobleach recovery

scientific article

Dissection of COPI and Arf1 dynamics in vivo and role in Golgi membrane transport

scientific article

Driving proteins off DNA using applied tension ⬇️

scientific article published on October 1, 1997

Dynamics and retention of misfolded proteins in native ER membranes

article

Dynamics of TGF-β signaling reveal adaptive and pulsatile behaviors reflected in the nuclear localization of transcription factor Smad4 ⬇️

scientific article published on June 11, 2012

Electrostatics of lipid bilayer bending

scientific article

Encoding of temporal signals by the TGF-β pathway and implications for embryonic patterning

scientific article

Entropic elasticity of lambda-phage DNA

scientific article (publication date: 9 September 1994)

Erratum: The effects of molecular noise and size control on variability in the budding yeast cell cycle

scientific article published in Nature

Excitation spectrum of the spiral state of a doped antiferromagnet

scientific article published on 01 October 1992

Exponential tails and random advection

scientific article published on 01 June 1991

Finite-time singularities in the axisymmetric three-dimension Euler equations

scientific article published in March 1992

Fluctuations and supercoiling of DNA.

scientific article published on July 1994

Forced periodic expression of G1 cyclins phase-locks the budding yeast cell cycle

scientific article

Gene expression from random libraries of yeast promoters

scientific article published on 16 January 2006

Gene free methodology for cell fate dynamics during development.

scientific article published on 13 December 2017

Genome wide identification of regulatory motifs in Bacillus subtilis ⬇️

scientific article published on May 16, 2003

Geometry, epistasis, and developmental patterning ⬇️

scientific article published on March 20, 2012

Golgi Tubule Traffic and the Effects of Brefeldin A Visualized in Living Cells ⬇️

scientific article published on December 1, 1997

Golgi membranes are absorbed into and reemerge from the ER during mitosis

scientific article

Ground state of a mobile vacancy in a quantum antiferromagnet: Small-cluster study

scientific article published on 01 April 1990

Ground-state properties of a single oxygen hole in a CuO2 plane

scientific article published on 01 January 1990

Ground-state properties of the two-dimensional antiferromagnetic Heisenberg model

scientific article published on 01 February 1989

Heat transport in high-Rayleigh-number convection

scientific article published on 01 September 1990

High functional overlap between MluI cell-cycle box binding factor and Swi4/6 cell-cycle box binding factor in the G1/S transcriptional program in Saccharomyces cerevisiae

scientific article

Human neural tube morphogenesis in vitro by geometric constraints

scientific article published on 27 October 2021

Identification of the binding sites of regulatory proteins in bacterial genomes

scientific article

In vitro modeling of early mammalian embryogenesis

scientific article published on 08 March 2020

Incipient singularities in the Navier-Stokes equations

scientific article published in October 1985

Intrinsic and extrinsic contributions to stochasticity in gene expression

scientific article

Kinetic analysis of secretory protein traffic and characterization of golgi to plasma membrane transport intermediates in living cells

scientific article

Lagrangian path integrals and fluctuations in random flow

scientific article published on 01 April 1994

Long-Term High-Resolution Imaging of Developing C. elegans Larvae with Microfluidics

scientific article

Mapping cell migrations and fates in a gastruloid model to the human primitive streak

scientific article published on 12 September 2019

Mean-field theory for vacancies in a quantum antiferromagnet

scientific article published on 01 November 1989

Micropattern differentiation of mouse pluripotent stem cells recapitulates embryo regionalized cell fate patterning

scientific article published on 7 February 2018

Mobile vacancies in a quantum Heisenberg antiferromagnet

scientific article published on 01 July 1988

Mobile vacancy in a quantum antiferromagnet: Effective Hamiltonian

scientific article published on 01 August 1990

Mode locking the cell cycle.

scientific article published on 24 August 2005

Modeling Mammalian Gastrulation With Embryonic Stem Cells

scientific article published on 12 April 2018

Modeling RNA folding paths with pseudoknots: application to hepatitis delta virus ribozyme

scientific article published on June 2000

Nuclear membrane dynamics and reassembly in living cells: targeting of an inner nuclear membrane protein in interphase and mitosis

scientific article (publication date: 22 September 1997)

Nucleosome-depleted regions in cell-cycle-regulated promoters ensure reliable gene expression in every cell cycle

scientific article

One-Dimensional Schrödinger Equation with an Almost Periodic Potential

scientific article published on 6 June 1983

Origin of irreversibility of cell cycle start in budding yeast

scientific article

Pareto evolution of gene networks: an algorithm to optimize multiple fitness objectives

scientific article (publication date: October 2012)

Phenotypic model for early T-cell activation displaying sensitivity, specificity, and antagonism.

scientific article published on 19 February 2013

Phenotypic models of evolution and development: geometry as destiny ⬇️

scientific article (publication date: December 2012)

PhyloGibbs: A Gibbs Sampler Incorporating Phylogenetic Information

scholarly article by Rahul Siddharthan et al published 2005 in Lecture Notes in Computer Science

PhyloGibbs: A Gibbs Sampling Motif Finder that Incorporates Phylogeny

scholarly article by Rahul Siddharthan et al published 2005 in PLOS Computational Biology

PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny

scientific article

Polymer Models of Meiotic and Mitotic Chromosomes ⬇️

scientific article published on November 1, 1997

Positive feedback of G1 cyclins ensures coherent cell cycle entry

scientific article

Predicting Ancestral Segmentation Phenotypes from Drosophila to Anopheles Using In Silico Evolution

scientific article

Predicting embryonic patterning using mutual entropy fitness and in silico evolution

scientific article published in July 2010

Probabilistic clustering of sequences: inferring new bacterial regulons by comparative genomics

scientific article

Profile of Eric D. Siggia. Interview by Farooq Ahmed

scientific article published on 2 April 2012

Protein-DNA binding specificity predictions with structural models

scientific article

Regulatory element detection using a probabilistic segmentation model

scientific article published in January 2000

Regulatory element detection using correlation with expression

scientific article published in February 2001

Scalar turbulence

scientific article published in June 2000

Scaling of BMP gradients in Xenopus embryos

scientific article published in September 2009

Self-organization of a human organizer by combined Wnt and Nodal signalling

scientific article published in Nature

Self-organization of human embryonic stem cells on micropatterns

scientific article published on 13 October 2016

Self-organization of stem cells into embryos: A window on early mammalian development

scientific article

Self-organization of the in vitro attached human embryo

scientific article published on 4 May 2016

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

scientific article published on 21 February 2008

Sequence turnover and tandem repeats in cis-regulatory modules in drosophila

scientific article

Shake it, don't break it: positive feedback and the evolution of oscillator design

scientific article

Signaling dynamics and embryonic development

scientific article published on 30 August 2012

Spin-wave velocity and susceptibility for the two-dimensional Heisenberg antiferromagnet

scientific article published on 01 December 1989

Spiral phase of a doped quantum antiferromagnet

scientific article published on 01 March 1989

Statistical mechanics of supercoiled DNA

scientific article published on 01 September 1995

Statistically derived geometrical landscapes capture principles of decision-making dynamics during cell fate transitions

scientific article published in 2022

Stochastic gene expression in a single cell

scientific article

Stretching DNA

scientific article (publication date: December 1995)

Stubb: a program for discovery and analysis of cis-regulatory modules

scientific article

Symmetry and Scaling of Turbulent Mixing

scientific article published on 01 September 1996

Temperature compensation and temperature sensation in the circadian clock

scientific article

The effects of molecular noise and size control on variability in the budding yeast cell cycle

scientific article

The evolution of DNA regulatory regions for proteo-gamma bacteria by interspecies comparisons

scientific article

The role of proofreading in signal transduction specificity

scientific article

Topological constraints on quasicrystal transformations

scientific article published on 01 September 1986

Tracking the in vivo evolution of multidrug resistance in Staphylococcus aureus by whole-genome sequencing

scholarly article

Transcriptional control in the segmentation gene network of Drosophila

scientific article

Two-particle excitations in antiferromagnetic insulators

scientific article published on 01 February 1988

Using DNA mechanics to predict in vitro nucleosome positions and formation energies.

scientific article published on 09 June 2009

Vortex morphology and Kelvin's theorem

scientific article published in April 1992

WNT signaling memory is required for ACTIVIN to function as a morphogen in human gastruloids

scientific article published on 12 October 2018

Paulina is supported by:

About Paulina

Help