Tim Kunz wins honors thesis award

Tim Kunz, an undergraduate researcher in our lab since 2014, has won the Fred Wedler award for Outstanding Undergraduate Dissertation in Biochemistry & Molecular Biology. Tim recently graduated with a B.Sc. in Biochemistry & Molecular Biology. His honors thesis is entitled “Visualizing and understanding chromatin organization using self-organizing maps”, and describes a new machine-learning approach to…

Dr. Guray Kuzu joins the lab

Dr. Guray Kuzu has joined our lab as a Postdoctoral Scholar. Guray was previously a Postdoctoral Fellow in a joint position with Michael Tolstorukov (Harvard Medical School) and Erica Larschan (Brown University). In this position he studied, amongst other things, chromatin accessibility and the function of the CLAMP proteins in Drosophila X chromosome dosage compensation.…

Study characterizing motor neuron programming dynamics published in Cell Stem Cell

Our manuscript describing the dynamics of induced motor neuron programming has been published in Cell Stem Cell. The manuscript, “A multi-step transcriptional and chromatin state cascade underlies motor neuron programming from embryonic stem cells“, results from a close collaboration between our lab, Esteban Mazzoni’s lab at NYU, and Uwe Ohler’s lab at the Max Delbrück…

Divyanshi Srivastava joins the lab

Divyanshi Srivastava, a graduate student in the MCIBS Bioinformatics & Genomics program, has joined our lab. Divyanshi has a BE in Computer Science, with an integrated MS in Biological Sciences from the Birla Institute of Technology, India. Her Master’s thesis was titled: ” Chromatin Mediated Antigenic Variation in Plasmodium falciparum“, and was carried out at the…

Collaborative paper on the pioneer transcription factor, Foxa2, published in Molecular Cell

Our collaborative study with Ken Zaret and colleagues at University of Pennsylvania has been published. The manuscript, entitled “The pioneer transcription factor FoxA maintains an accessible nucleosome configuration at enhancers for tissue-specific gene activation“, appears in Molecular Cell. While nucleosomes are often thought to block transcription factor binding at tissue-specific enhancers, lead author Maki Iwafuchi-Doi in…

Group publication accepted to PSB 2016

Shefali Verma in our lab (co-advised with Marylyn Ritchie) has had a manuscript accepted for presentation and publication at the Pacific Symposium on Biocomputing. The manuscript is titled “Phenome-wide interaction study (PheWIS) in AIDS clinical trials group data (ACTG)“. In this article, Shefali proposes a pipeline to identify interactions among genetic variants that are associated…