User: arta

gravatar for arta
arta590
Reputation:
590
Status:
Trusted
Location:
Sweden
Website:
https://github.com/Tan...
Last seen:
2 months ago
Joined:
5 years, 12 months ago
Email:
t***********@ki.se

I am PhD student at Karolinska Institute with a background bioinformatics. I am analyzing the high-throughput datasets (exome & RNA sequencing data, proteomics data) and develop new algorithms to understand the cancer better.

Posts by arta

<prev • 101 results • page 1 of 11 • next >
0
votes
0
answers
309
views
0
answers
Job: PhD position in Edinburg University & Karolinska Institute - Taming the Hippo in Cancer through Proteogenomics-
... You can find all related information [here][1]. [1]: https://www.ed.ac.uk/usher/precision-medicine/project-opportunities/20-21-projects/taming-the-hippo-in-mesothelioma-through-proteogen ...
genomics proteomics job phd position transcriptomics written 7 months ago by arta590
0
votes
3
answers
356
views
3
answers
Comment: C: Journals for rapid publication in computational biology
... Did you check [f1000research][1]? They are really fast, however, i am not sure whether or not they accept review and their impact factor is around 1. [1]: https://f1000research.com/ ...
written 9 months ago by arta590
1
vote
0
answers
837
views
0
answers
Comment: C: Pheatmap X-axis on Top
... Did you check [Complexheatmap][1] which provides large number of customized options? [1]: https://jokergoo.github.io/ComplexHeatmap-reference/book/ ...
written 9 months ago by arta590
0
votes
1
answer
361
views
1
answers
Comment: C: Selecting specific rows in R
... I did not say this is the best solution. This is the another way of solving the current solution. Imagine you want to keep just rows with "X", you can easily modify the code and keep those rows. ...
written 10 months ago by arta590
1
vote
1
answer
361
views
1
answers
Comment: C: Selecting specific rows in R
... The other solution is; ## example data: df1 <- data.frame(X2=c("X",1,2,"X"),X3=c("X",3,4,"X")) ## Delete "X" in each column separately df1.cleaned <- df1[df1$X2 != "X" & df1$X3 != "X" ,] ...
written 10 months ago by arta590
0
votes
3
answers
626
views
3
answers
Answer: A: Learn python programming
... To learn programming you have to keep coding. There is really nice platform called [Rosalind][1]. It is about learning bioinformatics as well as improving coding skills through solving real bioinformatics problems. It is up to you which programming language you use. I would strongly recommend for yo ...
written 11 months ago by arta590
1
vote
0
answers
1.1k
views
0
answers
Comment: C: How to reproduce MATLAB tsne('algorithm', 'exact') result in R?
... t-SNE (t-Distributed **Stochastic** Neighbor Embedding) starts with random initialization that is why each time when you run the algorithm, you get different results (not exactly same, slightly different). In order to reproduce the results in R, you can use `set.seed(x)` where x is numeric value. I ...
written 2.2 years ago by arta590
0
votes
0
answers
529
views
0
answers
Comment: C: Do gene expression microarrays cover all genes in the transcriptome?
... > Does that mean that microarrays are limited by genes that are known? Yes. > Do they do a good job of probing for all of these known genes? Yes, they design probe for all known genes. But there are limitation of detection as i said before. You can read [that paper][1] where they compare m ...
written 2.2 years ago by arta590
0
votes
0
answers
529
views
0
answers
Comment: C: Do gene expression microarrays cover all genes in the transcriptome?
... If you aim to detect something new, you can not do that using microarray since it is array (probe) based technology. Even if, you know the sequence and design a probe to capture the sequence, it is not guarantee that you will detect it due to very low and high expression of the sequence. Microarray ...
written 2.2 years ago by arta590
0
votes
1
answer
7.1k
views
1
answers
Comment: C: how to increase the size of legend in pheatmap
... To continue with @cpad0112's answer, you can try; pheatmap(, cellwidth=x, cellheight=y) where x and y values you can play around to find the best size. ...
written 2.2 years ago by arta590

Latest awards to arta

Centurion 7 months ago, created 100 posts.
Popular Question 8 months ago, created a question with more than 1,000 views. For How to find genes that are involved in particular pathway ?
Popular Question 10 months ago, created a question with more than 1,000 views. For How to find genes that are involved in particular pathway ?
Popular Question 19 months ago, created a question with more than 1,000 views. For How to find genes that are involved in particular pathway ?
Popular Question 19 months ago, created a question with more than 1,000 views. For Postdoc position in Bioinformatics at Karolinska Institute (Stockholm)
Popular Question 20 months ago, created a question with more than 1,000 views. For How to find genes that are involved in particular pathway ?
Teacher 2.2 years ago, created an answer with at least 3 up-votes. For A: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 201
Commentator 2.4 years ago, created a comment with at least 3 up-votes. For C: Which aligment tool is best for eukaryotic transcriptome?
Teacher 2.5 years ago, created an answer with at least 3 up-votes. For A: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 201
Teacher 2.7 years ago, created an answer with at least 3 up-votes. For A: What Are The Most Influential Bioinformatics/Computational Biology Papers Of 201
Scholar 2.7 years ago, created an answer that has been accepted. For A: DAVID: p-value and Benjamini correction interpretation
Commentator 2.8 years ago, created a comment with at least 3 up-votes. For C: Which aligment tool is best for eukaryotic transcriptome?
Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: microarray data analysis
Scholar 2.9 years ago, created an answer that has been accepted. For A: microarray data analysis
Teacher 2.9 years ago, created an answer with at least 3 up-votes. For A: microarray data analysis
Autobiographer 2.9 years ago, has more than 80 characters in the information field of the user's profile.
Popular Question 5.2 years ago, created a question with more than 1,000 views. For How to find genes that are involved in particular pathway ?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 913 users visited in the last hour