Explore next-generation sequencing—interviews, videos, and case studies from our customers

Ion Torrent semiconductor sequencing technology helps drive discovery around the world, from RNA sequencing panels for complex lung disease research, to exome sequencing for Mendelian disorder research, to variant detection in solid tumor samples.

CHLA

Children’s Hospital of Los Angeles & non-coding RNA

“There is a particular burden of proof on a platform that needs high density deep reads to evaluate the complexity of transcriptional activity.”

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Inherited disease research—sequencing eight or more exomes per day

“Speed is important for our service. But so is processing 8–12 exomes per day without batching. Ion S5 XL offers us both.”

Core lab—inside Sweden’s sequencing hub

“The Ion S5 system is so flexible with the different chip types…you can use it for small sequencing projects, up to quite large projects.”


Cancer research

Semiconductor-based sequencing for cancer diagnostics: gambling with chips

Christopher Corless, MD, PhD, is the chief medical officer at the Knight Diagnostic Laboratories at Oregon Health & Sciences University. Dr. Corless discusses results from recent work with the Ion AmpliSeq Cancer Panel, comparing its amplicon-based approach to hybrid capture methods. He reviews read depth, sensitivity, throughput, read length, and accuracy.

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Uncovering mutations in tumor tissue samples with a rapid turnaround

“I need to be able to vary the number and type of samples I put onto a run in any given week, but not compromise on cost per sample. If we have a lower number of samples we can run them on the smaller throughput chips. The Ion S5 XL offers this flexibility.”

—Dr. Jean François Laes, Chief Technology Officer, OncoDNA, Belgium

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Drs. Marcel Nelen and Jose Carlos Machado discuss new Ion AmpliSeq BRCA 1 & 2 panel

Dr. Marcel Nelen and Dr. José Carlos Machado discuss the development of the Ion AmpliSeq BRCA 1&2 Community Panel for clinical research. The panel, designed to screen mutations in the genes' coding regions, was developed by Drs. Marjolijn Ligtenberg and Arjen Mensenkamp of the Nijmegen Medical Center and Drs. José Carlos Machado and Jose Luis Costa of IPATIMUP. Dr. Machado discusses how Ion Torrent products have enabled his lab to study more genes, more quickly, than using previous methods. Leading scientists collaborate to create Ion AmpliSeq Community panels, which are then made available to the larger community.

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Uncovering mutations in tumor tissue samples with a rapid turnaround

“The most important thing for us was the bandwidth [The Ion S5 System] allowed us. Because of the three different chip sizes, we have the capacity to go from what we were used to be able to do, which was 1 sample per run, up to as many as 20 samples per run on the S5. We have the spectrum now to accommodate much larger sample load.”

—Dr. Paul W. Dempsey, Chief Scientific Officer, Cynvenio Biosystems, USA

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Inherited disease research

Sequencing eight or more exomes per day

“Speed is important for our service. But so is processing 8–12 exomes per day without batching. Ion S5 XL offers us both.”

—Dr. Sara Alvarez, Medical Director, NIMGenetics, Spain

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Reproductive health research

Children’s Hospital of Los Angeles & non-coding RNA

“There is a particular burden of proof on a platform that needs high density deep reads to evaluate the complexity of transcriptional activity.”

—Dr. Timothy Triche, Director, Children's Hospital Los Angeles Center for Personalized Medicine

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OSU's Audrey Papp discusses her first experiment with Ion AmpliSeq RNA panels

Audrey Papp, the technical director for the Program in Pharmacogenomics at Ohio State University, discusses her preliminary data using the new Ion AmpliSeq RNA panels in an autism experiment. Papp said the panels yielded the most accurate allelic expression data she has seen.

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Dr. Max Seibold discusses using Ion AmpliSeq RNA panels for an asthma biomarker project

Dr Seibold's lab recently used the Ion PGM System and Ion AmpliSeq RNA panels for an asthma biomarker project to help identify genetic determinants and biomarkers of complex lung diseases, including asthma and pulmonary fibrosis.

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Microbial research

Dr. Guilherme Oliveira on using the Ion PGM System and a multitude of applications including gene panel sequencing with Ion AmpliSeq panels and metagenomic applications

Dr. Guilherme Oliveira, of the Genomics and Computational Biology Group in Brazil, discusses his work with the Ion PGM sequencer and Ion AmpliSeq panels in a wide variety of research areas, including metagenomics, de novo sequencing of bacterial genomes, transcriptomics, and infectious and parasitic diseases.

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On top of outbreaks—rapid Ion PGM sequencing to advance clinical and public health microbiology

Dr. Dag Harmsen specialized in clinical microbiology and infectious diseases epidemiology. His scientific interests focus on molecular diagnostics, epidemiology, and phylogeny of micro-organisms. However, he is best known for delivering applied microbiology bioinformatics solutions, like the Ridom SpaServer for MRSA typing. He published the first study that applied the Bruker MALDI ToF MS system in microbiological diagnostics.

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Core lab

Inside Sweden’s sequencing hub

“The Ion S5 system is so flexible with the different chip types…you can use it for small sequencing projects, up to quite large projects.”

—Inger Jonasson, Laboratory Manager, Uppsala University Genome Center, Sweden

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Sinai's Vincent Funari on RNA sequencing his lab is doing with Ion Torrent sequencers

Vincent Funari, director of the Genomics Research Core at Cedars Sinai in Los Angeles, discusses the huge demand that he is seeing from scientists at his facility for sequencing on the Ion PGM sequencer and the Ion Proton sequencer. Dr. Funari uses the Ion Proton sequencer to study gene regulation using RNAseq, ChipSeq, and miRNA sequencing technologies in human conditions like diabetes or neuromuscular disease. He uses the Ion PGM sequencer for 16S sequencing and for mutation identification in targeted cancer gene panels like lung cancer.

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Implementing and applying Ion Torrent technology at the Broad Institute

Chad Nusbaum has been the co-director of the Genome Sequencing and Analysis Program at the Broad Institute since 2001. In 2012 he was appointed founding Scientific Director of the new Broad Technology Labs, an innovation incubator for the Institute.

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Experimentation and workflow

OSU's Audrey Papp discusses using Ion PGM sequencer and Ion Proton sequencer

Audrey Papp discusses using the ion PGM sequencer and the seamless migration to the Ion Proton sequencer. Papp discusses ease of use, experimental iteration, workflow, and the Ion OneTouch 2 System.

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