User: mkh

gravatar for mkh
mkh40
Reputation:
40
Status:
New User
Location:
USA/CT
Last seen:
1 month ago
Joined:
3 years, 7 months ago
Email:
m**************@gmail.com

I am working on mapping of genetic regulatory networks of large nucleotide dataset

Posts by mkh

<prev • 36 results • page 1 of 4 • next >
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Online alignment for large fasta files
... Hi I have a fasta genome file that contain 4000 genomic sequences (~ 30Mb size) in it. I would like to align this 4000 sequence to a reference genome. I was trying to use SINA (reference base multiple sequence alignment) in galaxy (https://usegalaxy.org/) however I have got memory error. Is there a ...
genome alignment sequence fasta written 4 weeks ago by mkh40 • updated 4 weeks ago by hugo.avila160
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gff3 format, modENCODE, score and ChIP-Seq
... Hi All, I am using a ChIP-Seq data from mod-ENCODE website. The file format that I have downloaded from this website is based on gff3. The 6th column of this file (pasted bellow) belongs to score which ranges from + to - score. First of all I am not sure what is this score about? Is it the summit c ...
score chip-seq bed file written 6 months ago by mkh40 • updated 6 months ago by genomax92k
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(Closed) Don't have access to Bioanalyzer
... Hi Folks, I would like to start doing RNA-seq assay, however, I realize that my department does not have Bioanalyzer equipment. What is your recommendation for testing RNA quality and size? Thanks, ...
chip-seq rna-seq written 13 months ago by mkh40
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Comment: C: RNAseq service recommendations
... Thank you. I am sorry for my bad question. So I edited my question to following: Which of these NGSs sequencers recommended HiSeq2500, Hiseq4000, NovaSeq and MiSeq ...
written 17 months ago by mkh40
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RNAseq service recommendations
... Hi All, I have recently started RNA-seq and ChiP-Seq assay and wanted to ask your advice as to where you guys recommend I could have them sequenced? I have the recommendation to use the Yale Facility but I have heard good things about other services, private and otherwise. What do you recommend? A ...
next-gen rna-seq written 17 months ago by mkh40 • updated 17 months ago by maxwhjohn1988100
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Comment: A: Construct a small computing server for GWAS Analysis
... thank you. Any suggestions for vendor? ...
written 18 months ago by mkh40
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Comment: A: Construct a small computing server for GWAS Analysis
... thank you for reply. the problem is that i am going to use this server to prepare md simulation as well. the hpc at my university is very expensive and it would be more cheaper for me to have my own server for my primary computation and only use hpc of ut for only heavy analysis. somebody suggest me ...
written 18 months ago by mkh40
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Forum: Construct a small computing server for GWAS Analysis
... Hi All, I would like to build up a small private server for high-throughput sequence analysis purposes. Unfortunately, I have no experience with building up such a computing server. I would appreciate if you can make a comment on this. What type of criteria do I need to consider? I know the high RA ...
assembly forum written 18 months ago by mkh40
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Merge overlapped gene coordinates in bed file format
... Hi I have a bed format file which looks like this: geneid start stop geneA 100 250 geneA 120 320 geneA 240 600 geneB 1100 1800 geneB 1110 1600 geneB 1500 1700 and I would like to merge the overlapping intervals as follow: geneid start stop geneA 100 600 geneB 1100 1800 Are there any ...
chip-seq written 19 months ago by mkh40 • updated 19 months ago by Pierre Lindenbaum131k
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Comment: C: Specific Antibodies for ChiP-Seq assay
... Thanks! I appreciate it! ...
written 19 months ago by mkh40

Latest awards to mkh

Popular Question 13 months ago, created a question with more than 1,000 views. For PCA plot for TOP 500 genes + prcomp
Popular Question 17 months ago, created a question with more than 1,000 views. For How to get PCA3 and PCA4 from Deseq2?
Popular Question 17 months ago, created a question with more than 1,000 views. For FIMO: scan motif on a DNA sequence
Popular Question 17 months ago, created a question with more than 1,000 views. For PCA plot for TOP 500 genes + prcomp
Popular Question 17 months ago, created a question with more than 1,000 views. For How to get PCA3 and PCA4 from Deseq2?
Popular Question 23 months ago, created a question with more than 1,000 views. For Difference Between Gene Expression And Transcript Expression
Autobiographer 3.6 years ago, has more than 80 characters in the information field of the user's profile.

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