Kay Leen

10 Questions 2 Answers 0 Followers

Questions related from Kay Leen

How do I remove magnetic beads from my sample before sending to Mass Spectometry?

Hello! I am running an experiment involving biotin labelled DNA oligonucleotides. I hope to identify nuclear proteins bound specifically to my ~70bp oligonucleotides and elute the nuclear proteins...

18 April 2023 3,758 2 View

Why are hg37 and hg38 linkage disequilibrium SNPs so different in LDlink (LDproxy)?

Hello! I am trying to find SNPs which are in linkage disequilibrium with my target SNP on LDproxy (https://ldlink.nci.nih.gov/?tab=ldproxy), however I realize I get very different results using...

05 October 2022 4,964 1 View

What does bigwig signal p value mean in ChIP-Seq?

Hi all, I have a few bigwig ChIP-Seq files downloaded from ENCODE and visualized on IGV. These are histone H3K4me3 and H3K27Ac ChIP-Seq data. However, I loaded the respective narrow bed and...

13 July 2022 3,677 0 View

How do I convert SNP_A- format to rs ID?

Hello, I am analyzing some whole genome data (I am very novice at it), and I have a list of SNPs with this format SNP_A- : SNP_A-4270094 SNP_A-8282305 SNP_A-8282312 SNP_A-8282315...

07 July 2022 3,807 0 View

How to get venn diagram / comparison from two differential expressed gene list?

Hello, I have quite a strange question to ask regarding RNA Sequencing differentially expressed list... I have two DE comparisons: (1) Disease line with deleted SNP vs disease line without...

06 July 2022 560 1 View

Can PAM be downstream of the targeted region for prime editing?

Hello! I wish to perform prime editing from A->G (upper strand) on induced pluripotent stem cells. However, as the 5' of my target editing region does not have PAM sites, would the figure I have...

20 February 2022 2,674 0 View

Why is there disparity in human protein atlas cell type between single cell and cell lines?

Hello! I am interested in looking at a gene (ENSG00000111863) in human protein atlas. Unfortunately, although it has high specificity in HUVEC and TIME (endothelial cell lines), it seemed to have...

09 February 2022 4,664 0 View

Normalizing bigwig files from different chip-seq datasets for sequencing depth?

Hello! I would like to visualize chip-seq bigwig output files on igv and compare the histone peaks directly, however I realise it is very difficult to compare them directly due to differences in...

24 August 2021 8,930 1 View

Reason for 'cut off' in droplet reading?

Hi all, I ran ddPCR and observed this 'cut off' for my 2D amplitude plot for all my samples. I have shown the non template control droplet image. In addition, all my droplets varied by a lot...

23 July 2021 4,088 1 View

Use of bacterial artificial chromosome (BAC) for trans 3C (chromosome conformation capture)?

Hi! I'm currently running 3C for an inter chromosomal interaction, and I have a few questions about the BAC control. Is it right if I purchase 2 BAC covering my regions of interest (on chromosome...

01 June 2021 4,528 4 View