Unconfigured Ad

Collapse
X
 
  • Time
  • Show
Clear All
new posts
  • Robby
    Member
    • Mar 2011
    • 68

    #16
    Hello everyone,

    I have a look for the cluster densities for the first time. Do you use for the cluster density the number out of the first base report or the cBot number or any other source? I am just asking because our number of clusters vary between the cBot and the first base report.

    Thanks
    Robby

    Comment

    • pmiguel
      Senior Member
      • Aug 2008
      • 2328

      #17
      Originally posted by Robby View Post
      Hello everyone,

      I have a look for the cluster densities for the first time. Do you use for the cluster density the number out of the first base report or the cBot number or any other source? I am just asking because our number of clusters vary between the cBot and the first base report.

      Thanks
      Robby
      Unless I am missing something, the cBot has no capability to assay cluster density.

      On the instrument there is a very inaccurate attempt at cluster density determination made after the first cycle. This is included in the first base report, or "FBR". Then after the 4th cycle another determination is made and for all intents and purposes that is the cluster density.

      However, the cluster density, as measured by the instrument software is not always accurate. At very low, or very high (>1000 Kclusters/mm2) densities the cluster density will be substantially below what the "real" density is.

      None of the above considers the next layer of processing that determines the "PF" or Pass Filter clusters.

      --
      Phillip

      Comment

      • Robby
        Member
        • Mar 2011
        • 68

        #18
        Thanks Philip. You wrote, that after the 4th cycle another cluster density determination is made. Is that cluster density the same as written in the final run statistics? Or where can we find the cluster densities after the 4th cycle?

        Comment

        • Robby
          Member
          • Mar 2011
          • 68

          #19
          OK, I found the answer: The cluster density will not change after cycle 4, so the final cluster density is the same like the 4th cycle cluster density.

          Comment

          • pmiguel
            Senior Member
            • Aug 2008
            • 2328

            #20
            Originally posted by Robby View Post
            OK, I found the answer: The cluster density will not change after cycle 4, so the final cluster density is the same like the 4th cycle cluster density.
            Yes, that is correct.

            --
            Phillip

            Comment

            Latest Articles

            Collapse

            • SEQadmin2
              Beyond CRISPR/Cas9: Understand, Choose, and Use the Right Genome Editing Tool
              by SEQadmin2



              CRISPR/Cas9 sparked the gene editing revolution for both research and therapeutics.1 But this system still showed severe issues that limited its applications. The most prominent were the heavy reliance on PAM sequences, delivery limitations, double-stranded breaks that prompt unintended edits and cell death, and editing inefficiency (both in targeting and in knock-in reliability).

              Despite this, “CRISPR helped turn genome editing from a specialized technique into
              ...
              07-31-2026, 11:01 AM
            • SEQadmin2
              Proteomic Platforms: How to Choose the Right Analytical Strategy to Improve Detection and Clinical Applications
              by SEQadmin2


              Proteomics platforms are evolving rapidly, with advances in mass spectrometry and affinity-based approaches expanding what researchers can detect and at what scale. As the field moves toward deeper proteome coverage and clinical applications, scientists face an increasingly complex landscape of tools. This article will explore how researchers are navigating these choices to find the right platform for their work.

              The systematic characterization of the human proteome has
              ...
              07-20-2026, 11:48 AM
            • SEQadmin2
              Advanced Sequencing Platforms Tackle Neuroscience’s Toughest Genomics Problems
              by SEQadmin2



              Genomics studies in neuroscience face a special challenge due to the brain’s complexity and scarcity of samples. Mapping changes in cell type and state using conventional next-generation sequencing methods remains challenging. Advances in technologies like single-cell sequencing, spatial transcriptomics, and long-read sequencing have opened the door to deeper studies of the brain and diseases like Alzheimer’s, amyotrophic lateral sclerosis (ALS), and schizophrenia.
              ...
              07-09-2026, 11:10 AM

            ad_right_rmr

            Collapse

            News

            Collapse

            Topics Statistics Last Post
            Started by SEQadmin2, 07-31-2026, 02:55 AM
            0 responses
            18 views
            0 reactions
            Last Post SEQadmin2  
            Started by SEQadmin2, 07-24-2026, 12:17 PM
            0 responses
            16 views
            0 reactions
            Last Post SEQadmin2  
            Started by SEQadmin2, 07-23-2026, 11:41 AM
            0 responses
            15 views
            0 reactions
            Last Post SEQadmin2  
            Started by SEQadmin2, 07-20-2026, 11:10 AM
            0 responses
            26 views
            0 reactions
            Last Post SEQadmin2  
            Working...