User: eddie.im

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eddie.im130
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Location:
Brazil
Last seen:
6 years, 3 months ago
Joined:
6 years, 10 months ago
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Posts by eddie.im

<prev • 29 results • page 1 of 3 • next >
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Comment: C: Paper publication without qPCR validation
... Hi Noolean, Thank you for the tip! I will take a look at it. ...
written 6.3 years ago by eddie.im130
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Comment: C: Paper publication without qPCR validation
... I have on both, one of the steps to detected those ncRNA was intergenic conservation among close species, so i got the sequences on both species and some others, but only one of then (which is the data i used) have public data available. ...
written 6.3 years ago by eddie.im130
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Comment: C: Paper publication without qPCR validation
... Hi Joe, thank you for your feedback! I didn't know about the ATCC!, Thank you for this tip! I explained it better on the other answers. As you can see i'm looking towards to do a biological validation, but on another close related species. It's because the public data was so complete, that i got ex ...
written 6.3 years ago by eddie.im130
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Comment: C: Paper publication without qPCR validation
... Hi Josh, Thank you for your feedback. I explained it better on Charles Answer, i will just paste it here. "I may have to explain better, sorry, i already got an experimental collaborator i just used this public data because we got a very close species of the same genera, and since we don't have en ...
written 6.3 years ago by eddie.im130
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Comment: C: Paper publication without qPCR validation
... Hi thanks for you feedback, I may have to explain better, sorry, i already got an experimental collaborator i just used this public data because we got a very close species of the same genera, and since we don't have enough money (yes, we do have money to host a world cup, but the investiment on re ...
written 6.3 years ago by eddie.im130
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Comment: C: Paper publication without qPCR validation
... Hi dario, thanks for your answer. Yes i tought about that, but on all papers on predicting new ncRNAs that i read none demonstrated that they are not being translated, just the expression. Also the sequences are very small to code a protein i believe, around ~130nt long and they are located on inte ...
written 6.3 years ago by eddie.im130
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Paper publication without qPCR validation
... Hello, I'm running a study on predicting ncRNA's in a bacterium and  i used a public rna-seq data (with tree biological replicates) to see if my predicted rna's are being expressed. I got some very good results, however i'm afraid that in order to publish, a qPCR analysis or nothern blot will be req ...
publication qpcr rna-seq ncrna written 6.3 years ago by eddie.im130
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Comment: C: Converting .sra files to fastq
... it's important to use the --split-files if it is paired end, otherwise you will get a very messy fastq file ...
written 6.3 years ago by eddie.im130
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Answer: A: alternative splicing analysis
... If you have RNA-seq data you can use TopHat, however it uses fastq/bam/sam files: http://bioinformatics.oxfordjournals.org/content/25/9/1105.short Or if you already know R language, you can use the Bioconductor package Rsubread, using the "subjunc" function. ...
written 6.3 years ago by eddie.im130
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Comment: C: DESeq differential expression
... Have you tried to swap the "reference" transcriptome? Like you did AxB, if you do BxA, maybe? ...
written 6.3 years ago by eddie.im130

Latest awards to eddie.im

Commentator 6.3 years ago, created a comment with at least 3 up-votes. For C: DESeq differential expression
Appreciated 6.6 years ago, created a post with more than 5 votes. For A: Could Any One Explain What Information Inside Sam File?
Teacher 6.6 years ago, created an answer with at least 3 up-votes. For A: Could Any One Explain What Information Inside Sam File?

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