Question: Filter Of 3'Utr Conserved Sequences
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gravatar for Naum Gershenzon
10.1 years ago by
Naum Gershenzon10 wrote:
Dear Sir/Madam, I figured out how to retrieve all conserved human 3'UTR sequences from Table Browser, however they came with multiple repetition (up to 5 times). So my question is “How can I filter these data in order to have all conserved human 3'UTR sequences WITHOUT DUPLICATION THE SAME SEQUEMCES MULTIPLE TIMES?” Sincerely Naum Gershenzon
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ADD COMMENTlink modified 10.1 years ago by Anton Nekrutenko1.7k • written 10.1 years ago by Naum Gershenzon10
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gravatar for Anton Nekrutenko
10.1 years ago by
Penn State
Anton Nekrutenko1.7k wrote:
Dear Naum: You have repetition because of multiple splice variants. There are several options for solving this problem. Option 1 | Merging Intervals ============================ Use Merge tool in "Operate on Genomic Intervals->Merge". This tool will merge all overlapping intervals into a single one. Option 2 | Clustering Intervals =============================== Cluster tool (in "Operate on Genomic Intervals->Cluster") will find overlapping intervals and will allow you to select the largest. To do so, set tool's options to: - "max distance between intervals" to 0 - "min number of intervals per cluster" to 1 - "return type" to "Find the largest interval in each cluster" Let me know if this helps. anton galaxy team
ADD COMMENTlink written 10.1 years ago by Anton Nekrutenko1.7k
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gravatar for Anton Nekrutenko
10.1 years ago by
Penn State
Anton Nekrutenko1.7k wrote:
Naum: See if this movie http://screencast.g2.bx.psu.edu/Nr_3-prime_UTRs.mov clarifies the situation. (You will need quicktime player to watch it). Thanks, anton Anton Nekrutenko Asst. Professor Department of Biochemistry and Molecular Biology Center for Comparative Genomics and Bioinformatics Penn State University anton@bx.psu.edu http://nekrut.bx.psu.edu 814.865.4752
ADD COMMENTlink written 10.1 years ago by Anton Nekrutenko1.7k
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