Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • Using Copy Number Alterations detected in other studies for the same tumor cell line

    Hello everybody,

    It is my first time working with cancer genomes and I have some doubts. I found this study in which they provide a lot of different sequencing data for the cell line HCC1395, and I would like to use them to assess a new tool that we are developing for detecting Copy Number Alterations. Problem is, I'm lacking a ground truth. In this study, they provide a golden dataset for SNVs and short INDELS, but they do not provide info about the CNAs. I necessarely need a not simulated normal/cancer sample pairs from the same patient, and this is the only source I found so far whicjh is freely providing a lot of well documented sequencing data.

    Since the HCC1395 cell line was already studied before, I found some other studies providing the CNAs they found for it. My question now is: can I use those CNAs found in other studies on the same cell line as a ground truth to compare what I will find with our tool on the data I have?

    I don't have much biological knowledge and my doubts arise manly because, If I undersood well, those cells are usually grown independently in a laboratory setting for each study, so I am not sure if they are comparable, or if they could have different mutations occurring between the different studies.




    Thanks in advance!

Latest Articles

Collapse

  • seqadmin
    Latest Developments in Precision Medicine
    by seqadmin



    Technological advances have led to drastic improvements in the field of precision medicine, enabling more personalized approaches to treatment. This article explores four leading groups that are overcoming many of the challenges of genomic profiling and precision medicine through their innovative platforms and technologies.

    Somatic Genomics
    “We have such a tremendous amount of genetic diversity that exists within each of us, and not just between us as individuals,”...
    05-24-2024, 01:16 PM
  • seqadmin
    Recent Advances in Sequencing Analysis Tools
    by seqadmin


    The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
    05-06-2024, 07:48 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 05-24-2024, 07:15 AM
0 responses
195 views
0 likes
Last Post seqadmin  
Started by seqadmin, 05-23-2024, 10:28 AM
0 responses
217 views
0 likes
Last Post seqadmin  
Started by seqadmin, 05-23-2024, 07:35 AM
0 responses
219 views
0 likes
Last Post seqadmin  
Started by seqadmin, 05-22-2024, 02:06 PM
0 responses
12 views
0 likes
Last Post seqadmin  
Working...
X