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nazaninhoseinkhan • 360
Status: New
Handle: @nazaninhoseinkhan9526
Reputation: 360
Email: n*********@gmail.com
Joined: 13 months ago
Last seen: 15 months ago
Location: Iran, Islamic Republic Of

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

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76
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conversion of case_ids to file_ids TCGA data
TCGA case_ids conversion
14 months ago
nazaninhoseinkhan • 360
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0
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129
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Methylation analysis using TCGAbiolinks package
TCGAbiolinks methylation
14 months ago
nazaninhoseinkhan • 360
3
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3
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755
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The proper order of defining groups in GEO2R
GEO2R order of defining groups
2.6 years ago
nazaninhoseinkhan • 360 • updated 14 months ago
murshad.60ali • 0
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0
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139
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How to analyze Geniom Biochips Microarray data
Geniom Biochip arrayExpress normalization
15 months ago
nazaninhoseinkhan • 360
0
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2
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339
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how to define different batches in DESeq2 in Galaxy
RNA-Seq DESeq2 batch effect removal
2.1 years ago
nazaninhoseinkhan • 360 • updated 16 months ago
Biostar 20
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0
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157
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How to define groups for dual channel microarray data in GEO2R?
GEO2R dual channel define groups
17 months ago
nazaninhoseinkhan • 360
0
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1
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221
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Rarefaction curves does not show all sample curves
Metagenomic analysis Rarefaction.single
18 months ago
nazaninhoseinkhan • 360
1
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0
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331
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Comment: C: Reading TCGA methylation .txt files in R
19 months ago
nazaninhoseinkhan • 360
2
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2
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331
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Reading TCGA methylation .txt files in R
Methylation analysis TCGA
19 months ago
nazaninhoseinkhan • 360
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0
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263
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Comment: C: Hierarchical clustering to group large number of samples
19 months ago
nazaninhoseinkhan • 360
2
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2
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263
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Hierarchical clustering to group large number of samples
RNA-Seq sample clustering
19 months ago
nazaninhoseinkhan • 360 • updated 19 months ago
Jean-Karim Heriche 19k
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393
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Comment: C: Differential expression analysis on miRNA count files
19 months ago
nazaninhoseinkhan • 360
1
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393
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Differential expression analysis on miRNA count files
mirSeq Differential expression
21 months ago
nazaninhoseinkhan • 360 • updated 19 months ago
ahmad mousavi • 430
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393
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Answer: A: Differential expression analysis on miRNA count files
21 months ago
nazaninhoseinkhan • 360
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1
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1.2k
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Comment: C: how to generate CNV plot from VEP results
21 months ago
nazaninhoseinkhan • 360
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1.2k
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Comment: C: how to generate CNV plot from VEP results
21 months ago
nazaninhoseinkhan • 360
1
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1
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860
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Comment: C: Annotation of huge number of CNV files
22 months ago
nazaninhoseinkhan • 360
1
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860
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Comment: C: Annotation of huge number of CNV files
22 months ago
nazaninhoseinkhan • 360
1
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860
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Comment: C: Annotation of huge number of CNV files
22 months ago
nazaninhoseinkhan • 360
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299
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problem in interpretation of Gistic copy number analysis
copy number alteration Gistic G-score
22 months ago
nazaninhoseinkhan • 360
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
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1
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
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1
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
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1
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
21
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53
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1.2k
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how to generate CNV plot from VEP results
copy number alteration VEP CNV plot
22 months ago
nazaninhoseinkhan • 360 • updated 22 months ago
Kevin Blighe 43k
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1
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
0
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1
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
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1
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1.2k
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Comment: C: how to generate CNV plot from VEP results
22 months ago
nazaninhoseinkhan • 360
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0
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860
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Comment: C: Annotation of huge number of CNV files
22 months ago
nazaninhoseinkhan • 360
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1
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860
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Comment: C: Annotation of huge number of CNV files
22 months ago
nazaninhoseinkhan • 360
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260
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Comment: C: absence of gene symbol when selecting "most severe consequence" in VEP
22 months ago
nazaninhoseinkhan • 360
4
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2
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260
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absence of gene symbol when selecting "most severe consequence" in VEP
Variant Effect Predictor filtering
22 months ago
nazaninhoseinkhan • 360 • updated 22 months ago
Emily_Ensembl 18k
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0
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860
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Comment: C: Annotation of huge number of CNV files
22 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
22 months ago
nazaninhoseinkhan • 360
0
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1
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233
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Discrepancy in Copy Number Alteration between different cancer stages
copy number alteration cancer stages
22 months ago
nazaninhoseinkhan • 360 • updated 22 months ago
t.kuilman • 750
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1
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510
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Comment: C: ClusterProfiler cannot map any gene
22 months ago
nazaninhoseinkhan • 360
3
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4
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510
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ClusterProfiler cannot map any gene
clusterProfiler EnsemblIDs biomaRt
22 months ago
nazaninhoseinkhan • 360
0
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1
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437
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Comment: C: problem in getting results from variant effect predictor(VEP)
23 months ago
nazaninhoseinkhan • 360
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0
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437
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Comment: C: problem in getting results from variant effect predictor(VEP)
23 months ago
nazaninhoseinkhan • 360
0
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6
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437
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problem in getting results from variant effect predictor(VEP)
VEP online error message
23 months ago
nazaninhoseinkhan • 360
0
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1
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437
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Answer: A: problem in getting results from variant effect predictor(VEP)
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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299
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Comment: C: changing the pattern of expression in two sequential stages of cancer
23 months ago
nazaninhoseinkhan • 360
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1
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299
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Comment: C: changing the pattern of expression in two sequential stages of cancer
23 months ago
nazaninhoseinkhan • 360
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5
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299
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changing the pattern of expression in two sequential stages of cancer
cancer stages converse pattern of expression
23 months ago
nazaninhoseinkhan • 360 • updated 23 months ago
Kevin Blighe 43k
1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
1
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2
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
2
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10
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1.1k
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problem with using gtf file in cufflinks in Galaxy
RNA-Seq GTF Cufflinks FPKM
4.2 years ago
nazaninhoseinkhan • 360 • updated 23 months ago
Biostar 20
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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0
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423
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Comment: C: Copy number variation between different cancer stages
23 months ago
nazaninhoseinkhan • 360
3
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2
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423
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Copy number variation between different cancer stages
CNV analysis different cancer stages
23 months ago
nazaninhoseinkhan • 360 • updated 23 months ago
Kevin Blighe 43k
1
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2
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
1
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0
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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1
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360
0
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2
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860
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Comment: C: Annotation of huge number of CNV files
23 months ago
nazaninhoseinkhan • 360 • updated 23 months ago
WouterDeCoster 39k
19
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43
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860
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Annotation of huge number of CNV files
CNV annotation TCGA
23 months ago
nazaninhoseinkhan • 360
1
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0
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443
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Comment: C: no significant FDR in gene enrichment analysis
2.0 years ago
nazaninhoseinkhan • 360
0
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1
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443
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Comment: C: no significant FDR in gene enrichment analysis
2.0 years ago
nazaninhoseinkhan • 360
0
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1
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443
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Comment: C: no significant FDR in gene enrichment analysis
2.0 years ago
nazaninhoseinkhan • 360
0
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1
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443
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Comment: C: no significant FDR in gene enrichment analysis
2.0 years ago
nazaninhoseinkhan • 360
2
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8
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443
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no significant FDR in gene enrichment analysis
rna-seq DEGs enrichment FDR
2.0 years ago
nazaninhoseinkhan • 360
0
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0
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511
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Comment: C: removing outliers before running DESeq2
2.0 years ago
nazaninhoseinkhan • 360
0
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1
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511
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Comment: C: removing outliers before running DESeq2
2.0 years ago
nazaninhoseinkhan • 360
3
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5
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511
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removing outliers before running DESeq2
RNA-Seq outliers deseq2
2.0 years ago
nazaninhoseinkhan • 360 • updated 2.0 years ago
arup ♦ 1.3k
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782
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Comment: C: what logFC or adj-p value cutoff should be chosen when the number of samples in
2.1 years ago
nazaninhoseinkhan • 360
0
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1
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782
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Comment: C: what logFC or adj-p value cutoff should be chosen when the number of samples in
2.1 years ago
nazaninhoseinkhan • 360
0
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1
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782
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Comment: C: what logFC or adj-p value cutoff should be chosen when the number of samples in
2.1 years ago
nazaninhoseinkhan • 360
2
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6
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782
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what logFC or adj-p value cutoff should be chosen when the number of samples in one of the conditions is too small?
RNA-Seq DESeq2 small number of normal samples
2.1 years ago
nazaninhoseinkhan • 360 • updated 2.1 years ago
Kevin Blighe 43k
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2
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469
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Illumina BeadChip Array probe file Vs control probe file
Illumina BeadChip Array Control probe file
2.3 years ago
nazaninhoseinkhan • 360 • updated 2.1 years ago
Biostar 20
0
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0
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636
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Comment: C: problem in EnsemblID to gene symbol conversion in TCGA data
2.1 years ago
nazaninhoseinkhan • 360
8
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12
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636
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problem in EnsemblID to gene symbol conversion in TCGA data
RNA-Seq TCGA read counts ensembl
2.1 years ago
nazaninhoseinkhan • 360 • updated 2.1 years ago
Erin_Ensembl • 370
0
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0
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636
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Comment: C: problem in EnsemblID to gene symbol conversion in TCGA data
2.1 years ago
nazaninhoseinkhan • 360
0
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2
Replies
636
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Comment: C: problem in EnsemblID to gene symbol conversion in TCGA data
2.1 years ago
nazaninhoseinkhan • 360
0
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1
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372
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Comment: C: what TCGA biospecimen filter should be selected for retrieving "invasive ductal
2.1 years ago
nazaninhoseinkhan • 360
0
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1
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372
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Comment: C: what TCGA biospecimen filter should be selected for retrieving "invasive ductal
2.1 years ago
nazaninhoseinkhan • 360
2
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5
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372
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what TCGA biospecimen filter should be selected for retrieving "invasive ductal breast carcinoma" data?
TCGA invasive ductal carcinoma
2.1 years ago
nazaninhoseinkhan • 360
0
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0
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488
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Comment: C: Is it correct if we use htseq counts as raw read counts in DESEq2?
2.1 years ago
nazaninhoseinkhan • 360
2
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5
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488
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Is it correct if we use htseq counts as raw read counts in DESEq2?
RNA-Seq DESeq2 htseqCounts
2.1 years ago
nazaninhoseinkhan • 360 • updated 2.1 years ago
Devon Ryan 90k
0
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0
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488
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Comment: C: Is it correct if we use htseq counts as raw read counts in DESEq2?
2.1 years ago
nazaninhoseinkhan • 360
1
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0
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1.1k
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Comment: C: problem in matching the names between file names and patients Id in TCGA
2.1 years ago
nazaninhoseinkhan • 360
0
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1
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1.1k
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Comment: C: problem in matching the names between file names and patients Id in TCGA
2.1 years ago
nazaninhoseinkhan • 360
0
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0
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339
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Comment: C: how to define different batches in DESeq2 in Galaxy
2.1 years ago
nazaninhoseinkhan • 360
0
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0
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458
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Comment: C: HTSeq-counts can not map any reads to gtf file
2.1 years ago
nazaninhoseinkhan • 360
1
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3
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458
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HTSeq-counts can not map any reads to gtf file
RNA-Seq htseq-counts no mapped reads
2.1 years ago
nazaninhoseinkhan • 360 • updated 2.1 years ago
Friederike 4.2k
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1.5k
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Comment: C: error in getting results from DESeq2
2.2 years ago
nazaninhoseinkhan • 360
0
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5
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1.5k
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error in getting results from DESeq2
DESeq2 results error
2.2 years ago
nazaninhoseinkhan • 360 • updated 2.2 years ago
Devon Ryan 90k
0
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1
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1.5k
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Comment: A: error in getting results from DESeq2
2.2 years ago
nazaninhoseinkhan • 360 • updated 2.2 years ago
Vijay Lakhujani 4.1k
0
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1
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1.1k
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Comment: C: problem in matching the names between file names and patients Id in TCGA
2.2 years ago
nazaninhoseinkhan • 360
0
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1
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1.1k
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Comment: C: problem in matching the names between file names and patients Id in TCGA
2.2 years ago
nazaninhoseinkhan • 360
0
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1
Reply
1.1k
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Comment: C: problem in matching the names between file names and patients Id in TCGA
2.2 years ago
nazaninhoseinkhan • 360
0
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1
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1.1k
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Comment: C: problem in matching the names between file names and patients Id in TCGA
2.2 years ago
nazaninhoseinkhan • 360 • updated 2.2 years ago
genomax 68k
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