Results 31 to 40 of about 222 (121)

At the dawn: cell-free DNA fragmentomics and gene regulation [PDF]

British Journal of Cancer, 2021
AbstractEpigenetic mechanisms play instrumental roles in gene regulation during embryonic development and disease progression. However, it is challenging to non-invasively monitor the dynamics of epigenomes and related gene regulation at inaccessible human tissues, such as tumours, fetuses and transplanted organs.
openaire   +2 more sources

Polyadenylation ligation‐mediated sequencing (PALM‐Seq) characterizes cell‐free coding and non‐coding RNAs in human biofluids

Clinical and Translational Medicine, Volume 12, Issue 7, July 2022., 2022
PALM‐Seq simultaneously characterizes the abundance and molecular signature of cell‐free coding and non‐coding RNAs. The profiles and end motifs of cf‐mRNA and cf‐lncRNA can distinguish biofluids. Seminal plasma tends to retain longer fragments than other biofluids.
Zhongzhen Liu, Taifu Wang, Xi Yang, Qing Zhou, Sujun Zhu, Juan Zeng, Haixiao Chen, Jinghua Sun, Liqiang Li, Jinjin Xu, Chunyu Geng, Xun Xu, Jian Wang, Huanming Yang, Shida Zhu, Fang Chen, Wen‐Jing Wang   +16 more
wiley   +1 more source

Cell-Free DNA Fragmentomics: The Novel Promising Biomarker

International Journal of Molecular Sciences, 2023
Cell-free DNA molecules are released into the plasma via apoptotic or necrotic events and active release mechanisms, which carry the genetic and epigenetic information of its origin tissues. However, cfDNA is the mixture of various cell fragments, and the efficient enrichment of cfDNA fragments with diagnostic value remains a great challenge for ...
Ting Qi, Min Pan, Huajuan Shi, Liangying Wang, Yunfei Bai, Qinyu Ge   +5 more
openaire   +2 more sources

Fragmentomic cfDNA Patterns in Noninvasive Prenatal Testing and Beyond

Journal of Biomedicine and Translational Research, 2021
The release of fetoplacental cell-free DNA (cfDNA) into the maternal bloodstream opened up new avenues towards noninvasive prenatal testing (NIPT) for aneuploidies, hereditary DNA mutations and other pregnancy-related developmental disorders. Increasingly, cfDNA catches interest for its noninvasive screening value in other areas as well, including ...
Kavish Kohabir, Rob Wolthuis, Erik A. Sistermans   +2 more
openaire   +4 more sources

Genomic and fragmentomic landscapes of cell-free DNA for early cancer detection. [PDF]

Nat Rev Cancer
Genomic analyses of cell-free DNA (cfDNA) in plasma are enabling noninvasive blood-based biomarker approaches to cancer detection and disease monitoring. Current approaches for identification of circulating tumour DNA typically use targeted tumour-specific mutations or methylation analyses.
Bruhm DC, Vulpescu NA, Foda ZH, Phallen J, Scharpf RB, Velculescu VE.   +5 more
europepmc   +4 more sources

Detection and characterization of lung cancer using cell-free DNA fragmentomes [PDF]

Nature Communications, 2021
AbstractNon-invasive approaches for cell-free DNA (cfDNA) assessment provide an opportunity for cancer detection and intervention. Here, we use a machine learning model for detecting tumor-derived cfDNA through genome-wide analyses of cfDNA fragmentation in a prospective study of 365 individuals at risk for lung cancer. We validate the cancer detection
Dimitrios Mathios, Jakob Sidenius Johansen, Stephen Cristiano, Jamie E. Medina, Jillian Phallen, Klaus R. Larsen, Daniel C. Bruhm, Noushin Niknafs, Leonardo Ferreira, Vilmos Adleff, Jia Yuee Chiao, Alessandro Leal, Michael Noe, James R. White, Adith S. Arun, Carolyn Hruban, Akshaya V. Annapragada, Sarah Østrup Jensen, Mai-Britt Worm Ørntoft, Anders Husted Madsen, Beatriz Carvalho, Meike de Wit, Jacob Carey, Nicholas C. Dracopoli, Tara Maddala, Kenneth C. Fang, Anne-Renee Hartman, Patrick M. Forde, Valsamo Anagnostou, Julie R. Brahmer, Remond J. A. Fijneman, Hans Jørgen Nielsen, Gerrit A. Meijer, Claus Lindbjerg Andersen, Anders Mellemgaard, Stig E. Bojesen, Robert B. Scharpf, Victor E. Velculescu   +37 more
openaire   +6 more sources

S225: CIRCULATING TUMOR DNA IS A PROGNOSTIC BIOMARKER AT BASELINE AND IMPROVES THE ACCURACY OF INTERIM PET IN CLASSIC HODGKIN LYMPHOMA

, 2022
HemaSphere, Volume 6, Issue S3, Page 126-127, June 2022.
M. C. Pirosa, A. Bruscaggin, L. Terzi di Bergamo, M. Salehi, K. Pini, V. Spina, S. Bocchetta, A. Condoluci, G. Forestieri, D. Piffaretti, J. Marques De Almeida, S. Annunziata, F. Bergesio, E. Borsatti, P. Bulian, S. Chauvie, C. Marco, D. T. Martina, G. Bernhard, M. Kurlapski, A. Moccia, R. Moia, A. Rinaldi, M. Rodari, G. Romanowicz, G. M. Sacchetti, A. Stasia, A. Stathis, G. Stüssi, I. Zangrilli, L. M. Larocca, A. Pinto, A. Santoro, F. Cavalli, E. Zucca, V. Gattei, J. M. Zaucha, C. Carlo‐Stella, S. Hohaus, G. Gaidano, L. Ceriani, D. Rossi   +41 more
wiley   +1 more source

Cancer treatment monitoring using cell-free DNA fragmentomes. [PDF]

Nat Commun
AbstractCirculating cell-free DNA (cfDNA) assays for monitoring individuals with cancer typically rely on prior identification of tumor-specific mutations. Here, we develop a tumor-independent and mutation-independent approach (DELFI-tumor fraction, DELFI-TF) using low-coverage whole genome sequencing to determine the cfDNA tumor fraction and validate ...
van 't Erve I, Alipanahi B, Lumbard K, Skidmore ZL, Rinaldi L, Millberg LK, Carey J, Chesnick B, Cristiano S, Portwood C, Wu T, Peters E, Bolhuis K, Punt CJA, Tom J, Bach PB, Dracopoli NC, Meijer GA, Scharpf RB, Velculescu VE, Fijneman RJA, Leal A.   +21 more
europepmc   +4 more sources

Fragmentomics of natural peptide structures

Biochemistry (Moscow), 2009
Natural fragmentation of peptide and other chemical structures is well known. They are a significant object of biochemical investigations. In this connection, the bases and determination are given for the notion of the "fragmentome" as a set of all fragments of a single substance, as well as for global fragmentome of all chemical components of living ...
openaire   +4 more sources

AGE-ASSOCIATED VARIABILITY OF CIRCULATING FREE DNA CHARACTERISTICS: GENOME-WIDE ANALYSIS

Journal of Bioinformatics and Genomics
The fragments of circulating free DNA (cfDNA) found in plasma are formed due to the genomic DNA degradation during cellular death. The present study is the first research of age-associated variability of cfDNA characteristics performed on the group of ...
Meshkov I.O., Remizova J.A., Makarova A.S., Primova A.A., Petrova V.A., Bukhanova A.A., Kumar N.A., Ivashechkin A.A., Makhotenko A.V., Snigir E.A., Makarov V.V., Yudin V.S., Keskinov A.A., Yudin S.M.   +13 more
doaj   +1 more source