Job Description:
We seek a motivated bioinformatician to be involved in our studies of gene regulatory networks. Our laboratory at Memorial Sloan-Kettering Cancer Center combines computational and experimental approaches to annotate and functionally elucidate small RNA pathways (e.g. miRNAs, siRNAs and piRNAs), mRNA processing pathways (e.g. alternative polyadenylation and circularization), and transcription factor networks (mostly regarding neural specification). Towards this end, we produce a great deal of small RNA, RNA-seq and ChIP-seq data, and analyze these with respect to the rich comparative genomic data available for Drosophila and mammals. There is a close exchange of ideas between dry and wet lab members to generate and test biologically-based hypotheses. Questions of ongoing interest include the mechanics of small RNA biogenesis, the evolution of small RNA genes and their function, the control of 3'UTR formation, how RNA circularization occurs and is regulated, and the mRNA/miRNA networks downstream of key neural transcription factors. We were also a core group of the NHGRI modENCODE consortium (http://www.modencode.org/) and continue with integrative analysis with other largescale datasets produced by consortium members.
Relevant candidates should have proficiency in a programming language (e.g. Java or C/C++) and a scripting language (e.g. Perl or Python), and experience with R and database systems. Strong experience with deep-sequencing data (e.g. Illumina, SOLiD, and/or third-generation methods) is essential. Postdoctoral fellows or BA/MS level candidates seeking experience before graduate school will be considered.
Recent Selected References
Wen, J., J. Mohammed, D. Bortolamiol-Becet, H. Tsai, N. Robine, J. O. Westholm, E. Ladewig, Q. Dai, K. Okamura, A. S. Flynt, D. Zhang, J. Andrews, L. Cherbas, T. C. Kaufman, P. Cherbas, A. Siepel, and E. C. Lai (2014). Diversity of miRNAs, siRNAs and piRNAs across 25 Drosophila cell lines. Genome Research 24: 1236-50.
Westholm, J. O, P. Miura, S. Olson, S. Shenker, B. Joseph, P. Sanfilippo, S. E. Celniker, B. R. Graveley and E. C. Lai (2014). Genomewide analysis of Drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation. Cell Reports 9: 1966-1980.
Shenker, S., P. Miura, P. Sanfilippo and E. C. Lai (2015). IsoSCM: Improved and alternative UTR annotation using multiple change-point inference. RNA 21: 14-27.
Dai, Q., A. Ren, J. O. Westholm, H. Duan, D. J. Patel and E. C. Lai (2015). Common and distinct DNA-binding and regulatory activities of the BEN-solo transcription factor family. Genes and Development 29: 48-62.
Wen, J., H. Duan, F. Bejarano, K. Okamura, L. Fabian, J. A. Brill, D. Bortolamiol-Becet, R. Martin, J. G. Ruby and E. C. Lai (2015). Adaptive regulation of testis gene expression and control of male fertility by the Drosophila hairpin RNA pathway. Molecular Cell, in press. Job Information Position Type: Bioinformatician Start Date: ASAP Duration: Full Time Status: openContact InformationMemorial Sloan-Kettering Cancer Center
Developmental Biology
Eric Lai
laie@mskcc.orghttp://ericlailab.comHow To Apply:Please send letter of inquiry, CV and references to laie@mskcc.org.
Additional Info:
[Click Here to Access the Original Job Post]
ISCB Job Board
Bioinformatician: Small RNA and TF networksMemorial Sloan-Kettering Cancer CenterDevelopmental BiologyUSA-NY-New York Bioinformatics position available at Sloan-Kettering, New York CityWe seek a motivated bioinformatician to be involved in our studies of gene regulatory networks. Our laboratory at Memorial Sloan-Kettering Cancer Center combines computational and experimental approaches to annotate and functionally elucidate small RNA pathways (e.g. miRNAs, siRNAs and piRNAs), mRNA processing pathways (e.g. alternative polyadenylation and circularization), and transcription factor networks (mostly regarding neural specification). Towards this end, we produce a great deal of small RNA, RNA-seq and ChIP-seq data, and analyze these with respect to the rich comparative genomic data available for Drosophila and mammals. There is a close exchange of ideas between dry and wet lab members to generate and test biologically-based hypotheses. Questions of ongoing interest include the mechanics of small RNA biogenesis, the evolution of small RNA genes and their function, the control of 3'UTR formation, how RNA circularization occurs and is regulated, and the mRNA/miRNA networks downstream of key neural transcription factors. We were also a core group of the NHGRI modENCODE consortium (http://www.modencode.org/) and continue with integrative analysis with other largescale datasets produced by consortium members.
Relevant candidates should have proficiency in a programming language (e.g. Java or C/C++) and a scripting language (e.g. Perl or Python), and experience with R and database systems. Strong experience with deep-sequencing data (e.g. Illumina, SOLiD, and/or third-generation methods) is essential. Postdoctoral fellows or BA/MS level candidates seeking experience before graduate school will be considered.
Recent Selected References
Wen, J., J. Mohammed, D. Bortolamiol-Becet, H. Tsai, N. Robine, J. O. Westholm, E. Ladewig, Q. Dai, K. Okamura, A. S. Flynt, D. Zhang, J. Andrews, L. Cherbas, T. C. Kaufman, P. Cherbas, A. Siepel, and E. C. Lai (2014). Diversity of miRNAs, siRNAs and piRNAs across 25 Drosophila cell lines. Genome Research 24: 1236-50.
Westholm, J. O, P. Miura, S. Olson, S. Shenker, B. Joseph, P. Sanfilippo, S. E. Celniker, B. R. Graveley and E. C. Lai (2014). Genomewide analysis of Drosophila circular RNAs reveals their structural and sequence properties and age-dependent neural accumulation. Cell Reports 9: 1966-1980.
Shenker, S., P. Miura, P. Sanfilippo and E. C. Lai (2015). IsoSCM: Improved and alternative UTR annotation using multiple change-point inference. RNA 21: 14-27.
Dai, Q., A. Ren, J. O. Westholm, H. Duan, D. J. Patel and E. C. Lai (2015). Common and distinct DNA-binding and regulatory activities of the BEN-solo transcription factor family. Genes and Development 29: 48-62.
Wen, J., H. Duan, F. Bejarano, K. Okamura, L. Fabian, J. A. Brill, D. Bortolamiol-Becet, R. Martin, J. G. Ruby and E. C. Lai (2015). Adaptive regulation of testis gene expression and control of male fertility by the Drosophila hairpin RNA pathway. Molecular Cell, in press. Job Information Position Type: Bioinformatician Start Date: ASAP Duration: Full Time Status: openContact InformationMemorial Sloan-Kettering Cancer Center
Developmental Biology
Eric Lai
laie@mskcc.orghttp://ericlailab.comHow To Apply:Please send letter of inquiry, CV and references to laie@mskcc.org.
Skills :
Areas :
Additional Info:
[Click Here to Access the Original Job Post]