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Handling Permutation in Sequence Comparison: Genome-Wide Enhancer Prediction in Vertebrates by a Novel Non-Linear Alignment Scoring Principle
Enhancers have been described to evolve by permutation without changing function. This has posed the problem of how to predict enhancer …
Dirk Dolle
,
Juan L. Mateo
,
Michael P. Eichenlaub
,
Rebecca Sinn
,
Robert Reinhardt
,
Burkhard Höckendorf
,
Daigo Inoue
,
Lazaro Centanin
,
Laurence Ettwiller
,
Joachim Wittbrodt
PDF
DOI
Loss of NFIX Transcription Factor Biases Postnatal Neural Stem/Progenitor Cells Toward Oligodendrogenesis
Murine postnatal neural stem cells (NSCs) give rise to neurons, astrocytes, or oligodendrocytes (OLs); however, our knowledge of the …
Bo Zhou
,
Jason M. Osinski
,
Juan L. Mateo
,
Ben Martynoga
,
Fraser J. Sim
,
Christine E. Campbell
,
François Guillemot
,
Michael Piper
,
Richard M. Gronostajski
PDF
DOI
CCTop: An Intuitive, Flexible and Reliable CRISPR/Cas9 Target Prediction Tool
Engineering of the CRISPR/Cas9 system has opened a plethora of new opportunities for site-directed mutagenesis and targeted genome …
Manuel Stemmer
,
Thomas Thumberger
,
Maria del Sol Keyer
,
Joachim Wittbrodt
,
Juan L. Mateo
PDF
Code
DOI
CCTop
Characterization of the neural stem cell gene regulatory network identifies OLIG2 as a multifunctional regulator of self-renewal
The gene regulatory network (GRN) that supports neural stem cell (NS cell) self-renewal has so far been poorly characterized. Knowledge …
Juan L. Mateo
,
Debbie L.C. van den Berg
,
Maximilian Haeussler
,
Daniela Drechsel
,
Zachary B. Gaber
,
Diogo S. Castro
,
Paul Robson
,
Q. Richard Lu
,
Gregory E. Crawford
,
Paul Flicek
,
Laurence Ettwiller
,
Joachim Wittbrodt
,
François Guillemot
,
Ben Martynoga
PDF
DOI
Epigenomic enhancer annotation reveals a key role for NFIX in neural stem cell quiescence
The majority of neural stem cells (NSCs) in the adult brain are quiescent, and this fraction increases with aging. Although signaling …
Ben Martynoga
,
Juan L. Mateo
,
Bo Zhou
,
Jimena Andersen
,
Angeliki Achimastou
,
Noelia Urbán
,
Debbie van den Berg
,
Dimitra Georgopoulou
,
Suzana Hadjur
,
Joachim Wittbrodt
,
Laurence Ettwiller
,
Michael Piper
,
Richard M. Gronostajski
,
François Guillemot
PDF
DOI
One iteration CHC algorithm for learning Bayesian networks: an effective and efficient algorithm for high dimensional problems
It is well known that learning Bayesian networks from data is an NP-hard problem. For this reason, usually metaheuristics or …
José A. Gámez
,
Juan L. Mateo
,
José M. Puerta
PDF
DOI
Learning Bayesian networks by hill climbing: efficient methods based on progressive restriction of the neighborhood
Learning Bayesian networks is known to be an NP-hard problem and that is the reason why the application of a heuristic search has …
José A. Gámez
,
Juan L. Mateo
,
José M. Puerta
PDF
DOI
Finding out general tendencies in speckle noise reduction in ultrasound images
This article investigates and compiles some of the techniques mostly used in the smoothing or suppression of speckle noise in …
Juan L. Mateo
,
Antonio Fernández-Caballero
PDF
DOI
Mining the ESROM: A study of breeding value classification in Manchego sheep by means of attribute selection and construction
Manchego sheep breeding represents an important factor in the economy in the region of Castilla-La Mancha, Spain. For this reason, the …
M. Julia Flores
,
José A. Gámez
,
Juan L. Mateo
PDF
DOI
Initial breeding value prediction on Manchego sheep by using rule-based systems
In this paper we present an application of rule-based expert systems to a farming problem. Concretely the prediction of the breeding …
Luis delaOssa
,
M. Julia Flores
,
José A. Gámez
,
Juan L. Mateo
,
José M. Puerta
PDF
DOI
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