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With the discontinuation of the Ribozero Bacteria kit Illumina left the whole field of bacterial transcriptomics out in the rain. People in the field, what alternatives do you use now?
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I had a meeting with our Qiagen rep recently who indicated that they may be working on a bacterial rRNA removal kit.
Definitely hoping to find a suitable alternative! -
Vazyme.bio techComment
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Just found that NuGen has a metatranscriptome kit based on their AnyDeplete Technology. Needs to be tested how good/bad the capture efficiency is.Comment
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We just started making riboPOOLs for affordable, custom depletion of ribosomal RNA
Contact us to make a custom riboPOOL to suit your needs - info (at) sitools.deLast edited by siTOOLs; 01-18-2019, 08:34 AM.Comment
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It was recommended that we use Ribominus or Microbexpress as an alternative, but I am having no success with either kit. I sequenced some samples that passed Bioanalyzer qc (no visible residual rRNA) but in both cases anywhere from 70-90% rRNA mapped and very low feature coverage. Has anyone had success with these products or implemented a solid alternative to Ribo-Zero?Comment
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Our group has obtained similar results with the RiboMinus kit. rRNA mapping at ~80%. Alternatives are still needed.Comment
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Just to be sure do you mean 70-90% of final reads are still rRNA? @MU_Core and @evan_seq24?Comment
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Yes, final reads which are rRNA.Comment
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Any update on this?
Several sequencing centers have discouraged MICROBExpress.
I'm interested in the riboPOOL kit (siTOOLs), but they don't reply.
Has anyone experience with this kit? Especially a combination riboPOOL foor soils/sediments (targeting prokaryotes and eukaryotes (plants/chloroplasts, protists, fungi, ...)?
thanks!Comment
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riboPOOLs by siTOOLs
Hi Furor, sorry if you haven't been able to get a reply. If you contact us through our website you should be contacted within 1-2 days. You can also obtain riboPOOLs through our US distributor, Galen Lab Supplies: https://galenmolecular.com/genetic-tools/ribopools/Comment
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According to Illumina (https://www.illumina.com/products/se...ion-guide.html) they have a new product pending for bacteria and plant leaf tissues. They state to contact Tech SupportOriginally posted by furor View PostComment
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Has anyone tried this kit from ZYMO? Usually ZYMO stuff is pretty good...
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Interesting...micrboEXPRESS looks to be an Ambion Kit (originally). But Ambion basically got destroyed when Thermo Fisher bought it...Originally posted by furor View PostComment
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The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist on Modified...Yesterday, 07:01 AM -
Proteins are often described as the workhorses of the cell, and identifying their sequences is key to understanding their role in biological processes and disease. Currently, the most common technique used to determine protein sequences is mass spectrometry. While still a valuable tool, mass spectrometry faces several limitations and requires a highly experienced scientist familiar with the equipment to operate it. Additionally, other proteomic methods, like affinity assays, are constrained...04-04-2024, 04:25 PM
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