Context-dependent DNA recognition code for C2H2 zinc-finger transcription factors (2008)
Motivation: Modeling and identifying the DNA-protein recognition code is one of the most challenging problems in computational biology. Several quantitative methods have been developed to model...
The cis-regulatory map of Shewanella genomes (2008)
Liu, Jiajian, Xu, Xing, Stormo, Gary D.
While hundreds of microbial genomes are sequenced, the challenge remains to define their cis-regulatory maps. Here, we present a comparative genomic analysis of the cis-regulatory map of Shewanella...
Abstract Background Recognition codes for protein-DNA interactions typically assume that the interacting positions contribute additively to the binding energy. While this is known to not be precisely...
Models for the specificity of DNA-binding transcription factors are often based on small amounts of qualitative data and therefore have limited accuracy. In this study we demonstrate a simple and...
Liu, Jiajian, Tan, Kai, Stormo, Gary D.
Spo0A‐phosphate is essential for the initiation of cellular differentiation and developmental processes in Gram‐positive spore‐forming bacteria. Here we combined comparative genomics...
Vita.
The role of lytic enzymes in biocontrol of sapstain fungi / (1996)
Typescript (photocopy).
Bacillus subtilis, like many bacteria, will choose among several response pathways when encountering a stressful environment. Among the processes activated under growth-restricting conditions are...
Liu, Jiajian, Tan, Kai, Stormo, Gary D.
Spo0A-phosphate is essential for the initiation of cellular differentiation and developmental processes in Gram-positive spore-forming bacteria. Here we combined comparative genomics with analyses of...
Moldes, Marthe, Zuo, Ying, Morrison, Ron F, Silva, David, Park, Bae-Hang, Liu, Jiajian, ...
The Wnt/beta-catenin signalling pathway appears to operate to maintain the undifferentiated state of preadipocytes by inhibiting adipogenic gene expression. To define the mechanisms regulating...
Models for the specificity of DNA-binding transcription factors are often based on small amounts of qualitative data and therefore have limited accuracy. In this study we demonstrate a simple and...
Functional Interaction between Peroxisome Proliferator-Activated Receptor γ and β-Catenin†
Liu, Jiajian, Wang, Hong, Zuo, Ying, Farmer, Stephen R.
Studies have demonstrated cross talk between β-catenin and peroxisome proliferator-activated receptor γ (PPARγ) signaling pathways. Specifically, activation of PPARγ induces the proteasomal...
Bacillus subtilis, like many bacteria, will choose among several response pathways when encountering a stressful environment. Among the processes activated under growth-restricting conditions are...
Liu, Jiajian, Tan, Kai, Stormo, Gary D.
Spo0A-phosphate is essential for the initiation of cellular differentiation and developmental processes in Gram-positive spore-forming bacteria. Here we combined comparative genomics with analyses of...
Moldes, Marthe, Zuo, Ying, Morrison, Ron F, Silva, David, Park, Bae-Hang, Liu, Jiajian, ...
The Wnt/beta-catenin signalling pathway appears to operate to maintain the undifferentiated state of preadipocytes by inhibiting adipogenic gene expression. To define the mechanisms regulating...
Models for the specificity of DNA-binding transcription factors are often based on small amounts of qualitative data and therefore have limited accuracy. In this study we demonstrate a simple and...
Functional Interaction between Peroxisome Proliferator-Activated Receptor γ and β-Catenin†
Liu, Jiajian, Wang, Hong, Zuo, Ying, Farmer, Stephen R.
Studies have demonstrated cross talk between β-catenin and peroxisome proliferator-activated receptor γ (PPARγ) signaling pathways. Specifically, activation of PPARγ induces the proteasomal...
The cis-regulatory map of Shewanella genomes
Liu, Jiajian, Xu, Xing, Stormo, Gary D.
While hundreds of microbial genomes are sequenced, the challenge remains to define their cis-regulatory maps. Here, we present a comparative genomic analysis of the cis-regulatory map of Shewanella...
Context-dependent DNA recognition code for C2H2 zinc-finger transcription factors
Motivation: Modeling and identifying the DNA-protein recognition code is one of the most challenging problems in computational biology. Several quantitative methods have been developed to model...