HI, I wonder whether anyone has used HaloPlex tech to prepare library for illumina highseq 2000 sequencer. does it work well for you?
many thanks, ding
many thanks, ding
-
-
I would also be interested in hearing what others have to say as well! I just got a HaloPlex kit, ran through it once... and bam! Nothing.
-
My bams had something, but not as much as they should. I asked a question about this a few weeks ago but got no response. We sequenced two lanes on a HiSeq and they were fine, but a third and fourth one had very low number of reads passing filter. At the moment our best guess is that the lanes were overloaded. We massively reduced the loading density for the failing samples and it seems to be working, although we are still testing things. Maybe there is something about haloplex libraries that makes them difficult to quantify accurately for the purposes of optimal loading. If anyone has an alternative theory I'd love to hear.Originally posted by rainbowboron View PostComment
-
Haloplex libraries
I have just completed a run of a FC using the Haloplex exome kit. While the protocol is nice and easy the cluster numbers are confusing me a bit. We quantified initially using the bioanalyzer and loaded our pools at the standard 8pm that gives us good cluster numbers on the hiseq (about 800K/mm2). These were down around the 300K mark.
The FC crashed so we ran again with a 12pm loading (I was slightly worried about overloading so aired on the side of caution) and we got around the 500K mark. I have since gone back to my pools and quantified by qPCR using the KAPA kit and the results were pretty similar to the BA. Not really sure what is going on.
We have also just run some sure select libraries using the BA to quant and loaded at 8pm resulting in good numbers. Halo libraries just dont seem to cluster as well as we had hoped. Running more soon so I will keep you updated.Comment
-
Tumors contain complex mixtures of cell populations that evolve in response to treatment and host-specific factors. Tissue biopsies provide only static snapshots of a tumor’s state. But what if we could follow that evolution over time using a minimally invasive technique?
Liquid biopsies can detect tumor-derived material circulating in the bloodstream, providing a way to study treatment response, detect emerging resistance, and discover new biomarkers. Circulating...Yesterday, 09:55 AM -
Researchers using sequencing and genomics tools often have to make trade-offs. They can choose between speed or scale, short reads or long-range information, or targeted panels or a view of the whole transcriptome. New technologies that have been released this year are built to address those tough choices.
We asked six companies the same four questions to learn about their latest products. The new technologies bring a lot to the table, including rethinking sequencing...
Comment