Sentences with phrase «sequence tumor samples»

The latter, presented by Eric Lander of the Broad Institute in Cambridge, Massachusetts, would systematically sequence tumor samples for mutations involved in cancer to speed up the search for new drugs and diagnostics.

After sequencing the tumor samples, the authors found that the JAK2 gene was more frequently amplified in chemotherapy - treated TNBC than in tumors before treatment.

Not exact matches

To determine how the cells switch from one type to another, they took three human uterine carcinosarcoma samples and sequenced the genomes of cells in two parts of each tumor: the carcinoma and sarcoma components.

While the latter has a reputation for being hard to isolate, she explains that even degraded RNA generally contains enough intact sequence to analyze — provided investigators can detect the scarce tumor signals against the immense background of other RNA molecules in a sample.

Zhang's group is moving beyond bulk sequencing of tumor samples and is now conducting genomics on single cells.

To more accurately reflect the mechanisms driving oligodendrogliomas, the researchers used RNA sequencing to study directly, on a single - cell level, gene expression in samples from six early - stage human tumors.

A tissue slice, a tumor biopsy, or a sample of a bacterial culture yields a sequence representing the average of all of the cells within it, even though researchers know there can be tremendous variation between those cells.

She and her colleagues sequenced genomic DNA in the tumor samples but did not find any new driver gene mutations in the metastatic samples compared to the primary tumor samples, said McDonald, who completed clinical training under Iacobuzio - Donahue at Johns Hopkins.

She has sequenced hundreds of tumor samples from across the island in an effort to understand how it evolves and how that affects the devils» survival rates.

The researchers analyzed the samples using immunohistochemistry and RNA sequencing to study the changes in the tumor immune microenvironment of patients who received and did not receive chemotherapy, and changes before and after chemotherapy.

A multicenter team of researchers reports that a full genomic analysis of tumor samples from a small number of people who died of pancreatic cancer suggests that chemical changes to DNA that do not affect the DNA sequence itself yet control how it operates confer survival advantages on subsets of pancreatic cancer cells.

Investigators compared DNA from the liquid blood biopsies to DNA tissue samples from the tumor, using mate - pair sequencing — an inexpensive whole exome sequencing that can reveal genetic changes that contribute to tumor growth.

NYGC computational biologists and members of the Simon Laboratory at The Rockefeller University discussed the possibility of using a series of computer algorithms to search for sequence differences between the tumor samples and samples of healthy liver tissue.

Information obtained via single - cell sequencing from cells sampled from each core indicate the likely location of a cancerous tumor (dotted lines encompassing cores 2, 3 and 6).

«Our findings show that high - intensity circulating tumor DNA sequencing is possible and may provide invaluable information for clinical decision - making, potentially without any need for tumor tissue samples,» said lead study author Pedram Razavi, MD, PhD, a medical oncologist and instructor in medicine at Memorial Sloan Kettering Cancer Center (MSK) in New York, NY.

To search for other characteristics of ccRCC tumors that influences immunotherapy response or resistance, the researchers used whole - exome DNA sequencing to analyze tumor samples from 35 patients treated in a clinical trial with the checkpoint blocker nivolumab (Opdivo).

In the first cohort, researchers led by Jeeyun Lee, MD, from Sungkyunkwan University School of Medicine in Seoul, performed whole exome sequencing on samples from paired synchronous primary and metastatic tumors.

The researchers used an enhanced version of a technique they developed called CAPP - Seq to isolate and sequence circulating tumor DNA, or ctDNA, from blood samples from the patients.

A robotic device the size of a dishwasher is humming nearby as dozens of tiny tubes move tumor samples through the sequencing process.

Fifteen teams analyzed nearly 500 patients» tumors for genetic aberrations and sequenced the protein - coding DNA of 316 samples — by far the largest cancer sequencing effort to date.

More than 150 cancer researchers have divvied up the work of sequencing about 500 tumor samples for each of some 20 cancer types (10,000 samples in total) at a cost of more than $ 375 million.

The idea is to sequence 10,000 tumor samples for each of several common cancers, such as breast and prostate.

First of all, only the metastatic sample was whole - genome sequenced — the primary tumor and matched normal were not.

Perhaps the most intriguing — and contentious — finding of the paper (as highlighted by GT's In Sequence magazine and Keith Robison on Omics Omics) was that few of the somatic mutations in the metastasis were detected in the primary tumor sample from 9 years earlier.

Instead, the authors identified nonsynonymous coding variants in met WGS data, and validated them by PCR / 3730 sequencing in the met, tumor, and normal samples.

Another collaboration was unfolding among the cancer geneticists, sequencing experts, clinical researchers, and surgical oncologists at Johns Hopkins, MD Anderson, and Baylor College of Medicine to study 32 pairs of head and neck tumor and normal tissue samples by whole - exome sequencing and validate the findings in an additional 88 samples.

Zhang et al performed whole - genome sequencing on tumor samples and matched normals from 12 children with ETP - ALL.

Grandis and Garraway decided to study a University of Pittsburgh collection of 74 pairs of tumor and normal tissue samples using the Broad's capacity to perform whole - exome sequencing.

This works well because the two samples (tumor and normal) are largely identical at a genetic level, and usually they're sequenced under identical protocols.

Scientists at the Beijing Institute of Genomics rigorously sampled nearly 300 regions from one slice of the tumor and sequenced or genotyped each one looking for genetic changes.

By sequencing the complete genomes of primary tumor, relapsed tumor, and matched normal (skin) samples from 8 AML patients, our group was able to study clonal evolution of AML tumors at the genetic level.

This public genome repository comprises genome results from both our Standard Sequencing Service (69 standard, non-diseased samples) and the Cancer Sequencing Service (two matched tumor and normal sample pairs).

Targeted sequencing was performed on available tumor samples of 125 patients.

As part of the Cancer Genome Atlas Project (TCGA), we've been applying both targeted (capture - based) and whole - genome sequencing approaches to tumor samples and matched normal controls.

Also, due to the high - priority of say, validating somatic variants in a tumor sample with 454 sequencing, we wanted something that could leverage faster aligners — parallelized BLAT for 454 and Bowtie for Illumina.

When the researchers sequenced the samples for genetic mutations and analyzed chromosome structure, they could trace the tumors» evolutionary histories, much as evolutionary biologists trace the origins of organisms back to their common ancestors based on fossils deposited in different geologic eras.

In the first set of experiments, the Johns Hopkins scientists sequenced nearly all protein - encoding genes in 10 of the 68 samples of pancreatic neuroendocrine tumors and compared these sequences with normal DNA from each patient to identify tumor - specific changes or mutations.