User: nazaninhoseinkhan

Reputation:
360
Status:
Trusted
Location:
Iran, Islamic Republic Of
Last seen:
3 weeks, 5 days ago
Joined:
5 years, 6 months ago
Email:
n****************@gmail.com

I am Nazanin Hosseinkhan, PhD in Bioinformatics. My background is Microbiology and I am seeking for a postdoc position.

Posts by nazaninhoseinkhan

<prev • 255 results • page 1 of 26 • next >
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conversion of case_ids to file_ids TCGA data
... Dear all, I need to convert case_ids of TCGA data to file_ids. I used TCGAutils but I could not convert the IDs Can you advice me how to do this? Regards Nazanin ...
tcga case_ids conversion written 26 days ago by nazaninhoseinkhan360
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Methylation analysis using TCGAbiolinks package
... Dear all, I am trying to use TCGAbiolinks to analyze methylation data. However since I want to analyze only a subset samples (certain tumor stage) of TCGA, I have downloaded those samples and I need to make a change in the following punch of codes to be able to continue methylation analysis: ...
tcgabiolinks methylation written 4 weeks ago by nazaninhoseinkhan360
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How to analyze Geniom Biochips Microarray data
... Dear all, I want to analyze a microarray data set which has been performed by Geniom Biochip arrays. I am not familiar with this platform. I read some paper in which PROP algorithm was suggested for the analysis of this type of data. However I could not find any instructions. I will appreciate a ...
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How to define groups for dual channel microarray data in GEO2R?
... Dear all, I want to use GEO2R for dual channel Agilent data in NCBI. However when I want to define groups in GEO2R (GSE2701), two columns for each sample (cy3 and cy5 channels) are present in the same row and there is no way to separate them. Can any body guide me to to define groups for these typ ...
dual channel define groups geo2r written 3 months ago by nazaninhoseinkhan360
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Rarefaction curves does not show all sample curves
... Dear all, I am trying to get the rarefaction curves for my 15 metagenomics samples. However the resulted plot show me only 13 curves. Can you tell me the possible reasons for this? Is it possible that my low sequence number samples would have been removed from plot? Regards Nazanin ...
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Comment: C: Reading TCGA methylation .txt files in R
... Hi Kevin, Happy new year 2019. Wishing you a prosperous year. Thank you for your comment. I will merge the files as you suggest me and let you know the results ...
written 5 months ago by nazaninhoseinkhan360
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Reading TCGA methylation .txt files in R
... Dear all, I am trying to analyze Methylation data of cancer patients and compare them with normal samples. Since the size of methylation data was so huge, I decided to download the entire data as .tar.gz instead of using "GDCdownload" function available in TCGABiolinks. However I cannot find out ...
methylation analysis tcga written 5 months ago by nazaninhoseinkhan360
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Comment: C: error in introducing different batches to DeSeq2
... Dear all, I repeat the factor introduction steps and my problem was solved. Happy new year 2019 to all Galaxy members. I wish you all health, wealth and peace in 2019. Nazanin ...
written 5 months ago by nazaninhoseinkhan360
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(Closed) error in introducing different batches to DeSeq2
... Dear all, I faced with a problem in introducing different batches to DeSeq2. I have chemotherapy resistant ans sensitive samples that include 3 different cell line (1,2,3) and have been performed by 3 different illumina sequencer (HiSeq 2500, HiSeq 3000 and next seq). I got the htseq counts files ...
deseq2 introducing batches rna-seq written 5 months ago by nazaninhoseinkhan360
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Comment: C: Hierarchical clustering to group large number of samples
... Thanks for your comments. Sure. I will try dynamicTreeCut package ...
written 5 months ago by nazaninhoseinkhan360

Latest awards to nazaninhoseinkhan

Popular Question 4 weeks ago, created a question with more than 1,000 views. For Downloading data from TCGA
Popular Question 6 weeks ago, created a question with more than 1,000 views. For Downloading data from TCGA
Popular Question 3 months ago, created a question with more than 1,000 views. For co-expression between transcription factors and their targets
Popular Question 3 months ago, created a question with more than 1,000 views. For importing normalized cel files in to geworkbench
Great Question 3 months ago, created a question with more than 5,000 views. For False discovery rate
Popular Question 3 months ago, created a question with more than 1,000 views. For WGCNA module membership cutoff
Popular Question 3 months ago, created a question with more than 1,000 views. For how to perform cross platform gene expression analysis
Popular Question 3 months ago, created a question with more than 1,000 views. For How to find a protein with a specific number of aminoacids
Popular Question 3 months ago, created a question with more than 1,000 views. For Downloading data from TCGA
Popular Question 3 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 3 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 4 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 5 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 5 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 5 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 5 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 5 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 8 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Great Question 8 months ago, created a question with more than 5,000 views. For False discovery rate
Popular Question 9 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 9 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Popular Question 10 months ago, created a question with more than 1,000 views. For Difficulty in getting GTF file from iGenomes
Supporter 11 months ago, voted at least 25 times.
Great Question 11 months ago, created a question with more than 5,000 views. For False discovery rate
Popular Question 13 months ago, created a question with more than 1,000 views. For WGCNA module membership cutoff

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