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lincSAFARI SIGNED

Sequence and Function Relationships in Long Intervening Noncoding RNAs

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 lincSAFARI project word cloud

Explore the words cloud of the lincSAFARI project. It provides you a very rough idea of what is the project "lincSAFARI" about.

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Project "lincSAFARI" data sheet

The following table provides information about the project.

Coordinator
WEIZMANN INSTITUTE OF SCIENCE 

Organization address
address: HERZL STREET 234
city: REHOVOT
postcode: 7610001
website: www.weizmann.ac.il

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Israel [IL]
 Total cost 1˙500˙000 €
 EC max contribution 1˙500˙000 € (100%)
 Programme 1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
 Code Call ERC-2014-STG
 Funding Scheme ERC-STG
 Starting year 2015
 Duration (year-month-day) from 2015-06-01   to  2020-05-31

 Partnership

Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 
1    WEIZMANN INSTITUTE OF SCIENCE IL (REHOVOT) coordinator 1˙500˙000.00

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 Project objective

It is now clear that many intergenic regions in eukaryotic genomes give rise to a range of processed and regulated transcripts that do not appear to code for functional proteins. A subset of these are long (>200 nt), capped and polyadenylated RNAs transcribed by RNA polymerase II and collectively called long intervening noncoding RNAs or lincRNAs. The recent estimates are that the human genome encodes >10,000 distinct lincRNAs, many of which show tissue-specific expression and are frequently dysregulated in human disease, including neurodegeneration.

Given the growing number of lincRNAs implicated in human disease or required for proper development, fundamental questions that need to be addressed are: Which lincRNAs are functional? How is functional information encoded in the lincRNA sequence? Is this information interpreted in the context of the mature or the nascent RNA? What are the identities and functional roles of specific sequence domains within lincRNA genes?

Our main hypothesis is that many lincRNA loci play key roles in gene regulation during cell differentiation, both via functionally important transcription events and post-transcriptionally, through the combined action of multiple short sequence domains. We will test this hypothesis using three complementary approaches – comparative genomics, detailed perturbations in mammalian cells followed by quantitative molecular phenotyping, and high-throughput screens for sequences able to carry out specific functions.

We propose an interdisciplinary approach combining computational, molecular and stem cell biology. Our methodology will be scalable, allowing us to tackle completely uncharacterized long RNAs and eventually zoom in and study their individual bases. Upon successful accomplishment of the program, we will delineate modes of action of numerous lincRNAs, report sequence patches that are functionally important and understand how specific bases and structures act in concert to drive lincRNA function.

 Publications

year authors and title journal last update
List of publications.
2019 Aviv Rom, Liliya Melamed, Noa Gil, Micah Jonathan Goldrich, Rotem Kadir, Matan Golan, Inbal Biton, Rotem Ben-Tov Perry, Igor Ulitsky
Regulation of CHD2 expression by the Chaserr long noncoding RNA gene is essential for viability
published pages: , ISSN: 2041-1723, DOI: 10.1038/s41467-019-13075-8
Nature Communications 10/1 2020-01-30
2018 Rotem Ben-Tov Perry, Hadas Hezroni, Micah Jonathan Goldrich, Igor Ulitsky
Regulation of Neuroregeneration by Long Noncoding RNAs
published pages: 553-567.e5, ISSN: 1097-2765, DOI: 10.1016/j.molcel.2018.09.021
Molecular Cell 72/3 2020-01-30
2018 Noa Gil, Igor Ulitsky
Production of Spliced Long Noncoding RNAs Specifies Regions with Increased Enhancer Activity
published pages: 537-547.e3, ISSN: 2405-4712, DOI: 10.1016/j.cels.2018.10.009
Cell Systems 7/5 2020-01-30
2016 Rotem Ben-Tov Perry, Igor Ulitsky
The functions of long noncoding RNAs in development and stem cells
published pages: 3882-3894, ISSN: 0950-1991, DOI: 10.1242/dev.140962
Development 143/21 2019-06-05
2017 Hadas Hezroni, Rotem Ben-Tov Perry, Zohar Meir, Gali Housman, Yoav Lubelsky, Igor Ulitsky
A subset of conserved mammalian long non-coding RNAs are fossils of ancestral protein-coding genes
published pages: 162, ISSN: 1474-760X, DOI: 10.1186/s13059-017-1293-0
Genome Biology 18/1 2019-06-05
2016 Ailone Tichon, Noa Gil, Yoav Lubelsky, Tal Havkin Solomon, Doron Lemze, Shalev Itzkovitz, Noam Stern-Ginossar, Igor Ulitsky
A conserved abundant cytoplasmic long noncoding RNA modulates repression by Pumilio proteins in human cells
published pages: 12209, ISSN: 2041-1723, DOI: 10.1038/ncomms12209
Nature Communications 7 2019-06-05
2017 Ana Tamarkin-Ben-Harush, Jean-Jacques Vasseur, Françoise Debart, Igor Ulitsky, Rivka Dikstein
Cap-proximal nucleotides via differential eIF4E binding and alternative promoter usage mediate translational response to energy stress
published pages: , ISSN: 2050-084X, DOI: 10.7554/eLife.21907
eLife 6 2019-06-05
2017 Kathy Ushakov, Tal Koffler-Brill, Aviv Rom, Kobi Perl, Igor Ulitsky, Karen B. Avraham
Genome-wide identification and expression profiling of long non-coding RNAs in auditory and vestibular systems
published pages: , ISSN: 2045-2322, DOI: 10.1038/s41598-017-08320-3
Scientific Reports 7/1 2019-06-05
2016 Igor Ulitsky
Evolution to the rescue: using comparative genomics to understand long non-coding RNAs
published pages: 601-614, ISSN: 1471-0056, DOI: 10.1038/nrg.2016.85
Nature Reviews Genetics 17/10 2019-06-05

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