Leavy Zhang

9 Questions 19 Answers 0 Followers

Questions related from Leavy Zhang

Fast method to find out similar target sequences for a huge number of query sequences?

Hello, I have nearly 300M barcode sequences, length of which is about 16 nt. For each of them I want to find out the best similar target from the whitelist database containing about 700 thousand...

12 July 2022 4,934 2 View

How to match cell subtypes (populations) between single cell ATAC-seq and single cell RNA-seq data?

Hi, Recently, we performed parallel experiments of single cell (sc) ATAC-seq and scRNA-seq on the same cell sample using 10X Kit and its protocol. As I know so far, cell labeling for them could...

07 May 2020 8,640 0 View

How to perform comparison analysis of conservation for novelly detected motifs?

Hello everyone, I have two batches genomic DNA sequences, respectively from ChIP-seq analyses of two species. I know many tools could perform differential enrichment of motifs between samples....

13 November 2018 4,740 3 View

Any recommendation of lncRNA target prediction?

I used LncTar software to predicting mRNA targets of lncRNAs, which took so much time that I could bear that any longer. Is there any other shortcut for this performance? Thank you quite a lot!

22 March 2017 6,714 5 View

How to perform concensus calling for cell-free DNA (cfDNA) sequencing data?

Recently, I read some papers for cfDNA-seq analysis, in which concensus calling was emphasized for times, I tried to find out what that means and understood that some cfDNA fragments were too...

03 August 2016 8,659 1 View

How do I differential expression analysis with sRNA-seq having biological replicates in each condition?

Usually, many studies did differential expression analysis in their microRNA or tasi-RNA transcriptomic studies using the method described in this paper...

26 October 2015 9,793 2 View

How do I solve memory usage in trinity when reads number for assembly is too large?

Recently, I obtained three RNA-seq pair-ended libraries for transcriptome assembly using trinity. The read number in total is nearly 290M while my server has a limited memory for 64G, which could...

04 April 2015 7,283 4 View

Is there any reference for systematic discussion about the differences between A genome and D genome subspecies in cotton?

I am a freshman in cotton research. So, could any gentleman recommend me with some good papers about agronomic trait differences between At genome and Dt genome in Gossypium genus, such as G....

31 March 2015 4,635 2 View

Which solution is better for differential analysis during single cell ATAC data integration?

Hey, I recently have a confusion about single cell ATAC-seq integration analysis between samples. I have read many discussions about that issue. So, I summarized them into two solutions as...

01 January 1970 742 1 View