Resolving genetic heterogeneity in cancer

S Turajlic, A Sottoriva, T Graham… - Nature Reviews Genetics, 2019 - nature.com
To a large extent, cancer conforms to evolutionary rules defined by the rates at which clones
mutate, adapt and grow. Next-generation sequencing has provided a snapshot of the …

Deep learning in cancer diagnosis and prognosis prediction: a minireview on challenges, recent trends, and future directions

AB Tufail, YK Ma, MKA Kaabar… - … Methods in Medicine, 2021 - Wiley Online Library
Deep learning (DL) is a branch of machine learning and artificial intelligence that has been
applied to many areas in different domains such as health care and drug design. Cancer …

Colorectal cancer: genetic abnormalities, tumor progression, tumor heterogeneity, clonal evolution and tumor-initiating cells

U Testa, E Pelosi, G Castelli - Medical Sciences, 2018 - mdpi.com
Colon cancer is the third most common cancer worldwide. Most colorectal cancer
occurrences are sporadic, not related to genetic predisposition or family history; however, 20 …

Neuroblastoma arises in early fetal development and its evolutionary duration predicts outcome

V Körber, SA Stainczyk, R Kurilov, KO Henrich… - Nature Genetics, 2023 - nature.com
Neuroblastoma, the most frequent solid tumor in infants, shows very diverse outcomes from
spontaneous regression to fatal disease. When these different tumors originate and how …

Subclonal reconstruction of tumors by using machine learning and population genetics

G Caravagna, T Heide, MJ Williams, L Zapata… - Nature …, 2020 - nature.com
Most cancer genomic data are generated from bulk samples composed of mixtures of cancer
subpopulations, as well as normal cells. Subclonal reconstruction methods based on …

Quantification of subclonal selection in cancer from bulk sequencing data

MJ Williams, B Werner, T Heide, C Curtis, CP Barnes… - Nature …, 2018 - nature.com
Subclonal architectures are prevalent across cancer types. However, the temporal
evolutionary dynamics that produce tumor subclones remain unknown. Here we measure …

Detecting repeated cancer evolution from multi-region tumor sequencing data

G Caravagna, Y Giarratano, D Ramazzotti… - Nature …, 2018 - nature.com
Recurrent successions of genomic changes, both within and between patients, reflect
repeated evolutionary processes that are valuable for the anticipation of cancer progression …

Single-cell DNA sequencing reveals punctuated and gradual clonal evolution in hepatocellular carcinoma

L Guo, X Yi, L Chen, T Zhang, H Guo, Z Chen, J Cheng… - Gastroenterology, 2022 - Elsevier
Background & Aims Copy number alterations (CNAs), elicited by genome instability, are a
major source of intratumor heterogeneity. How CNAs evolve in hepatocellular carcinoma …

Histone modifications and their role in epigenetics of cancer

S Zaib, N Rana, I Khan - Current medicinal chemistry, 2022 - ingentaconnect.com
Epigenetic regulations play a crucial role in the expression of various genes that are
important in the normal cell function. Any alteration in these epigenetic mechanisms can …

A temporal shift of the evolutionary principle shaping intratumor heterogeneity in colorectal cancer

T Saito, A Niida, R Uchi, H Hirata, H Komatsu… - Nature …, 2018 - nature.com
Advanced colorectal cancer harbors extensive intratumor heterogeneity shaped by neutral
evolution; however, intratumor heterogeneity in colorectal precancerous lesions has been …