Defining functional DNA elements in the human genome
With the completion of the human genome sequence, attention turned to identifying and
annotating its functional DNA elements. As a complement to genetic and comparative …
annotating its functional DNA elements. As a complement to genetic and comparative …
Conserved expression without conserved regulatory sequence: the more things change, the more they stay the same
Regulatory regions with similar transcriptional output often have little overt sequence
similarity, both within and between genomes. Although cis-and trans-regulatory changes …
similarity, both within and between genomes. Although cis-and trans-regulatory changes …
Sepsid even-skipped Enhancers Are Functionally Conserved in Drosophila Despite Lack of Sequence Conservation
The gene expression pattern specified by an animal regulatory sequence is generally
viewed as arising from the particular arrangement of transcription factor binding sites it …
viewed as arising from the particular arrangement of transcription factor binding sites it …
Binding Site Turnover Produces Pervasive Quantitative Changes in Transcription Factor Binding between Closely Related Drosophila Species
Changes in gene expression play an important role in evolution, yet the molecular
mechanisms underlying regulatory evolution are poorly understood. Here we compare …
mechanisms underlying regulatory evolution are poorly understood. Here we compare …
Large-Scale Turnover of Functional Transcription Factor Binding Sites in Drosophila
The gain and loss of functional transcription factor binding sites has been proposed as a
major source of evolutionary change in cis-regulatory DNA and gene expression. We have …
major source of evolutionary change in cis-regulatory DNA and gene expression. We have …
Adaptive evolution of transcription factor binding sites
J Berg, S Willmann, M Lässig - BMC evolutionary biology, 2004 - Springer
Background The regulation of a gene depends on the binding of transcription factors to
specific sites located in the regulatory region of the gene. The generation of these binding …
specific sites located in the regulatory region of the gene. The generation of these binding …
Local graph alignment and motif search in biological networks
J Berg, M Lässig - Proceedings of the National Academy of …, 2004 - National Acad Sciences
Interaction networks are of central importance in postgenomic molecular biology, with
increasing amounts of data becoming available by high-throughput methods. Examples are …
increasing amounts of data becoming available by high-throughput methods. Examples are …
Genetics of schizophrenia: historical insights and prevailing evidence
Abstract Schizophrenia's (SZ's) heritability and familial transmission have been known for
several decades; however, despite the clear evidence for a genetic component, it has been …
several decades; however, despite the clear evidence for a genetic component, it has been …
Genome clashes in hybrids: insights from gene expression
In interspecific hybrids, novel phenotypes often emerge from the interaction of two divergent
genomes. Interactions between the two transcriptional networks are assumed to contribute …
genomes. Interactions between the two transcriptional networks are assumed to contribute …
Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster
Despite increasing numbers of computational tools developed to predict cis-regulatory
sequences, the availability of high-quality datasets of transcription factor binding sites limits …
sequences, the availability of high-quality datasets of transcription factor binding sites limits …