Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
This topic is closed.
X
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • #61
    Hi everyone, I am Haodong from UCLA. I'm a second year graduate student.

    Comment


    • #62
      Hi from yclin

      Hi everyone,

      Happy to find here.

      I'm a grad student in Illinois, US and just start working on RNA-Seq data of Illumina or 454.

      Best Regards

      Comment


      • #63
        Hi from Estonia

        I'm Anri, graduate student from Tallinn. Have been working with phage display for some time and now I'm trying to mix it with some Illumina/Solexa in order to get most out of it.

        Comment


        • #64
          hey all,
          was wondering if anyone has worked with the CASAVA1.6 build..??
          kinda stuck trying to generate genome studio tracks/inputs from aligned matepair data..
          any help is appreciated..
          thanks
          best
          shu

          Comment


          • #65
            Yello !

            Hi Everyone,

            I'm a research assistant (bioinformatics) looking for SNPs. Have you seen them ?

            Actually we are currently looking at all our options for setting up a data analysis pipeline for dicovering SNPs (mainly from SOLiD data). We are looking at a number of cancers and hoping to find novel mutations (not in dbSNP) for further investigation. Any help will be appreciated and in a little while I hope i'll be able to give some answers myself....

            good to meet you's,

            Joe

            Comment


            • #66
              hey joe,
              nice to meet you too and thanks for your reply..We did manage to fire CASAVA .. and we do observe a lot of snps.. Obviously we have to filter out and land on those precious few.. dbsnp-ve somatic snps.. do you use any particular algorithm for SNP validation prior to experimental validation?? I have heard of SIFT..was wondering if there are any better.. SIFT is mainly for exonic snps..

              Comment


              • #67
                Sorry Shu we havnt got any such algorithm working yet. but this is from the SOAPsnp site;

                "SOAPsnp uses a method based on Bayes’ theorem (the reverse probability model) to call consensus genotype by carefully considering the data quality, alignment, and recurring experimental errors."

                We are also looking at doing some more filtering in MySQL if neccessary.

                Comment


                • #68
                  Good evening, everyone, I'm writing you from EMBL Genomics Core Facility in Heidelberg, Germany, of which I'm in charge. We've got 3 GAIIx, which we like, more or less. We are running pretty much every imaginable application on them and mostly successfully, luckily. However, the devil is in the detail and thus we also have gone thru our share of rather frustrating moments coming from all possible corners of GAIIx space.
                  Cheers, Vladimir

                  Comment


                  • #69
                    Gidday,

                    My name is Mike, I work for LIC, a dairy breeding cooperative in Hamilton, New Zealand. We use sequence data to breed better dairy bulls for pastoral based dairy farmers throughout the world.

                    "Our mice are large, black and white."

                    Comment


                    • #70
                      SIFT reaches the ceiling when it comes to het(1/2) called SNPs.. any obivous ways(computational) to get around it??not so obvious ones will be appreciated as well..

                      Comment


                      • #71
                        Hello, everybody,

                        I am working in Japan. Just I started working with illumina GAIIx for EST and RNA sequencing.

                        Best wishes!

                        Comment


                        • #72
                          Hi My Name is Martin I'm an Undergrad Student at the National Autonomous University of Mexico (UNAM), I'm a student in the undergrad program of Genomic Sciences . Nowadays I'm working with solexa reads for my research project.

                          Comment


                          • #73
                            I'm a Research Biologist working at Merck Research Laboratories. I'm pretty new to next-gen sequencing but not new to most of the bench techniques. I've already gotten a couple of good suggestions off this forum! I hope to be able to help in the future as much as I get help now.

                            Comment


                            • #74
                              Hi,

                              Am undergrad student working at UMC Groningen, the Netherlands. Today is my first day and I'll be using Taverna to set up a pipeline for Genome Analyzer data analysis.

                              Cheers!

                              Comment


                              • #75
                                Hello everyone!

                                I am a PhD student at the Technion, Israel Institute of Technology. Usually working on metagenomics, but in the coming few months will be working on Solexa data.

                                Cheers,
                                Itai

                                Comment

                                Latest Articles

                                Collapse

                                • seqadmin
                                  Choosing Between NGS and qPCR
                                  by seqadmin



                                  Next-generation sequencing (NGS) and quantitative polymerase chain reaction (qPCR) are essential techniques for investigating the genome, transcriptome, and epigenome. In many cases, choosing the appropriate technique is straightforward, but in others, it can be more challenging to determine the most effective option. A simple distinction is that smaller, more focused projects are typically better suited for qPCR, while larger, more complex datasets benefit from NGS. However,...
                                  10-18-2024, 07:11 AM
                                • seqadmin
                                  Non-Coding RNA Research and Technologies
                                  by seqadmin




                                  Non-coding RNAs (ncRNAs) do not code for proteins but play important roles in numerous cellular processes including gene silencing, developmental pathways, and more. There are numerous types including microRNA (miRNA), long ncRNA (lncRNA), circular RNA (circRNA), and more. In this article, we discuss innovative ncRNA research and explore recent technological advancements that improve the study of ncRNAs.

                                  Nobel Prize for MicroRNA Discovery
                                  This week,...
                                  10-07-2024, 08:07 AM

                                ad_right_rmr

                                Collapse

                                News

                                Collapse

                                Topics Statistics Last Post
                                Started by seqadmin, Yesterday, 05:31 AM
                                0 responses
                                10 views
                                0 likes
                                Last Post seqadmin  
                                Started by seqadmin, 10-24-2024, 06:58 AM
                                0 responses
                                20 views
                                0 likes
                                Last Post seqadmin  
                                Started by seqadmin, 10-23-2024, 08:43 AM
                                0 responses
                                48 views
                                0 likes
                                Last Post seqadmin  
                                Started by seqadmin, 10-17-2024, 07:29 AM
                                0 responses
                                58 views
                                0 likes
                                Last Post seqadmin  
                                Working...
                                X