Evidence map›Paper›PMID 36010895›Full record

ArticleCancers2022

Improvements in Quality Control and Library Preparation for Targeted Sequencing Allowed Detection of Potentially Pathogenic Alterations in Circulating Cell-Free DNA Derived from Plasma of Brain Tumor Patients.

Paulina Szadkowska, Adria-Jaume Roura, Bartosz Wojtas, Kamil Wojnicki, Sabina Licholai, Tomasz Waller, Tomasz Gubala, Kacper Zukowski, Michal Karpeta, Kinga Wilkus and 3 more

Open access · goldAbstract read
In one paragraph

Article in Cancers, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
8citing papers in PubMed, 1 pooled it
0.9field-weighted citation impact, top 28% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

8 citing papers in PubMed, 1 synthesis or guideline pooled it, 10 citations in OpenAlex.

  1. Pooled it
  2. Review
  3. Review
  4. Review
  5. Article
  6. Review
  7. Review
  8. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

13 authors at 5 institutions in 1 country.

Paulina SzadkowskaNencki Institute of Experimental Biology, 02-093 Warsaw, Poland.ORCID 0000-0001-8125-4843
Adria-Jaume RouraNencki Institute of Experimental Biology, 02-093 Warsaw, Poland.ORCID 0000-0002-8271-8803
Bartosz WojtasNencki Institute of Experimental Biology, 02-093 Warsaw, Poland.
Kamil WojnickiNencki Institute of Experimental Biology, 02-093 Warsaw, Poland.ORCID 0000-0002-1630-4389
Sabina LicholaiAcademic Computer Centre CYFRONET AGH, 30-950 Krakow, Poland.
Tomasz WallerAcademic Computer Centre CYFRONET AGH, 30-950 Krakow, Poland.
Tomasz GubalaAcademic Computer Centre CYFRONET AGH, 30-950 Krakow, Poland.
Kacper ZukowskiAcademic Computer Centre CYFRONET AGH, 30-950 Krakow, Poland.ORCID 0000-0002-5690-3634
Michal KarpetaRegional Science and Technology Centre, 26-060 Podzamcze, Poland.ORCID 0000-0002-1122-8030
Kinga WilkusPostgraduate School of Molecular Medicine, Medical University of Warsaw, 02-007 Warsaw, Poland.ORCID 0000-0001-9854-1160
Wojciech KasperaDepartment of Neurosurgery, Medical University of Silesia, Regional Hospital, 41-200 Sosnowiec, Poland.ORCID 0000-0002-7139-3409
Sergiusz NawrockiDepartment of Oncology, University of Warmia and Mazury in Olsztyn, 10-228 Olsztyn, Poland.ORCID 0000-0001-6225-6528
Bozena KaminskaNencki Institute of Experimental Biology, 02-093 Warsaw, Poland.
Instytut Biologii Doświadczalnej im. Marcelego Nenckiego · PLAkademickie Centrum Komputerowe Cyfronet AGH · PLMedical University of Silesia · PLMedical University of Warsaw · PLUniversity of Warmia and Mazury in Olsztyn · PL

Funding

Foundation for Polish Science TEAM-TECH Core Facility project "NGS platform for comprehensive diagnostics and personalized therapy in neuro-oncology"The National Center of Research and Development GLIOMED STRATEGMED3/307326/6/NCBR/2017
6 · The paper itself

Abstract

Malignant gliomas are the most frequent primary brain tumors in adults. They are genetically heterogenous and invariably recur due to incomplete surgery and therapy resistance. Circulating tumor DNA (ctDNA) is a component of circulating cell-free DNA (ccfDNA) and represents genetic material that originates from the primary tumor or metastasis. Brain tumors are frequently located in the eloquent brain regions, which makes biopsy difficult or impossible due to severe postoperative complications. The analysis of ccfDNA from a patient's blood presents a plausible and noninvasive alternative. In this study, freshly frozen tumors and corresponding blood samples were collected from 84 brain tumor patients and analyzed by targeted next-generation sequencing (NGS). The cohort included 80 glioma patients, 2 metastatic cancer patients, and 2 primary CNS lymphoma (PCNSL) patients. We compared the pattern of genetic alterations in the tumor DNA (tDNA) with that of ccfDNA. The implemented technical improvements in quality control and library preparation allowed for the detection of ctDNA in 8 out of 84 patients, including 5 out of 80 glioma patients. In 32 out of 84 patients, we found potentially pathogenic genetic alterations in ccfDNA that were not detectable in tDNA. While sequencing ccfDNA from plasma has a low efficacy as a diagnostic tool for glioma patients, we concluded that further improvements in sample processing and library preparation can make liquid biopsy a valuable diagnostic tool for glioma patients.

Indexed as

ccfDNAcirculating tumor DNAgliomaliquid biopsytargeted NGS

Identifiers

PMID36010895
PMCPMC9405692
OpenAlexW4291415382

What OpenQuestion holds

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Registered trials

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.