Evidence map›Paper›PMID 41009816›Full record

ArticleInternational journal of molecular sciences2025

Methodological Comparison of Short-Read and Long-Read Sequencing Methods on Colorectal Cancer Samples.

Nikolett Szakállas, Alexandra Kalmár, Kristóf Róbert Rada, Marianna Kucarov, Tamás Richárd Linkner, Barbara Kinga Barták, István Takács, Béla Molnár

Abstract readComparative Study
PubMed Full text at PMC Publisher
In one paragraph

Article in International journal of molecular sciences, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.

0numbers the graph read from it
0cells of the map it votes in
1citing papers in PubMed
–field-weighted citation impact
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

1 citing paper in PubMed.

  1. Review
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

8 authors.

Nikolett SzakállasDepartment of Biological Physics, Faculty of Science, Eötvös Loránd University, 1117 Budapest, Hungary.
Alexandra KalmárDepartment of Internal Medicine and Oncology, Faculty of Medicine, Semmelweis University, 1083 Budapest, Hungary.
Kristóf Róbert RadaDepartment of Internal Medicine and Oncology, Faculty of Medicine, Semmelweis University, 1083 Budapest, Hungary.
Marianna KucarovDoctoral School of Applied Informatics and Applied Mathematics, BioTech Research Center, Óbuda University, 1034 Budapest, Hungary.ORCID 0009-0007-6362-6763
Tamás Richárd LinknerDepartment of Internal Medicine and Oncology, Faculty of Medicine, Semmelweis University, 1083 Budapest, Hungary.
Barbara Kinga BartákDepartment of Internal Medicine and Oncology, Faculty of Medicine, Semmelweis University, 1083 Budapest, Hungary.
István TakácsDepartment of Internal Medicine and Oncology, Faculty of Medicine, Semmelweis University, 1083 Budapest, Hungary.
Béla MolnárDepartment of Internal Medicine and Oncology, Faculty of Medicine, Semmelweis University, 1083 Budapest, Hungary.

Funding

Ministry of Culture and Innovation of Hungary and National Research, Development and Innovation FK0201NEPE / TKPNKTA-47Ministry of Culture and Innovation of Hungary and National Research, Development and Innovation KDP-2023/C2270480Ministry of Culture and Innovation of Hungary and National Research, Development and Innovation and the Fund's National Cardiovascular Laboratory RRF-2.3.1-21-2022-00003
6 · The paper itself

Abstract

Colorectal cancer (CRC) is driven by a complex spectrum of somatic mutations and structural variants that contribute to tumor heterogeneity and therapy resistance. In this study, we performed a comparative analysis of short-read Illumina and long-read Nanopore sequencing technologies across multiple CRC sample groups, encompassing diverse tissue morphologies. Our evaluation included general base-level metrics-such as nucleotide ratios, sequence match rates, and coverage-as well as variant calling performance, including variant allele frequency (VAF) distributions and pathogenic mutation detection rates. Focusing on clinically relevant genes (

Indexed as

Colorectal NeoplasmsHigh-Throughput Nucleotide SequencingNanopore SequencingSequence Analysis, DNAGene FrequencyHumansMutationProto-Oncogene Proteins B-rafProto-Oncogene Proteins p21(ras)BRAF protein, humanKRAS protein, humanProto-Oncogene Proteins B-rafProto-Oncogene Proteins p21(ras)colorectal cancercomparative studylong-read sequencingmethodologynext-generation sequencingshort-read sequencing

Identifiers

PMID41009816
PMCPMC12470448

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

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.