Welcome Yoav Mathov
to the lab.
Yoav starts a direct PhD program in the lab, as an ELSC student.
New paper from the lab in Cell Reports
in which we helped in the analysis of the zebrafish TCR repertoire and its response to stimulation with self and
foreign antigens. The paper can be accessed
at the journal site.
R. Covacu, H. Philip, M. Jaronen, J. Almeida, J. Kenison, S. Darko, C.-C. Chao, G. Yaari, Y. Louzoun,
L. Carmel, D.C. Douek, S. Efroni, F.J. Quintana (2016) System-wide Analysis of the T Cell Response.
Cell Reports 14:2733-2744.
New paper from the lab in Clinical
. This is a joint research with Prof. Ephrat Levy-Lahad from Shaare Zedek Medical
Center, where we identify mutations that underlie Mendelian diseases. The paper can be accessed
at the journal site.
R. Jaron, N. Rosenfeld, F. Zahdeh, S. Carmi, L. Beni-Adani, R. Segel,
S. Zeligson, L. Carmel, P. Renbaum, E. Levy-Lahad (2016) Expanding the phenotype of CRB2 mutations -
A new ciliopathy syndrome?, Clinical Genetics, in press.
We all say goodbye to Michal Chorev, the
first lab member to complete her PhD. She joined the Machine Learning for HealthCare and Life Sciences
group of the Cognitive Analytics and Solutions
department in IBM research.
New paper from the lab in Trends in
Ecology and Evolution
. This is a review paper, surveying the new and exciting field of
paleo-epigenetics, which is all about inferring epigenetic patterns in ancient genomes.
The paper can be accessed online
at the TREE site.
D. Gokhman , E. Meshorer , L. Carmel (2016) Epigenetics: It's getting old. Past meets future
in paleoepigenetics, Trends in Ecology and Evolution, in press.
Our lab deals with a host of topics in the general fields of molecular evolution
Among the topics that are currently actively pursued are:
- Recent human evolution. Recent advances in ancient DNA sequencing yielded complete high-coverage
genomes of the Neandertal and the Denisovan. We devise algorithms that predict the DNA methylation along
ancient DNA, and identifies genes that are differently activated in present-day humans.
- Gene architecture. We study conservation of gene architecture by means of intronic positional
conservation. This is an extension of the more "standard" sequence and structure evolutionary
conservation modes. We are interested in the quantification of this conservation, and in studying its
implication on our understanding of intronic functions.
We also study the evolutionary forces that have led to the wealth of gene architectures seen across the
eukaryotic domain. This includes the identification of evolutionary trends, and the study of mechanisms
of intron gain and loss.
- Splicing. We study the functional roles of splicing in general, and of alternative splicing in
particular. We develop a tool to estimate the effect of splicing on normal splicing patterns, and its
connection to human diseases.
- Massive parallel sequencing. We are involved in a number of projects that involve the analysis
of next-generation sequencing data. Among these are identifying human disease-causing
mutations, and studying the mutational spectrum of meiosis in yeast. We mainly
use resequencing and RNA-seq analysis.
- Nonsense mediated decay (NMD). We are interested in the mechanism that recognizes a premature
termination codon in mammals, and its relationship with introns in the 3'UTR.
- Phylogenetics. We are interested in various aspects of rooting phylogenetic trees.
- Systems biology. We characterize the dynamics of gene architecture in individual genes,
and are interested in studying the connections between this dynamics and other genic features.
- Multivariate data analysis. My lab is also active in some fields of applied mathematics:
multivariate analysis, statistical pattern recognition, data visualization, and machine learning.