Tumor heterogeneity: preclinical models, emerging technologies, and future applications

M Proietto, M Crippa, C Damiani, V Pasquale… - Frontiers in …, 2023 - frontiersin.org
Heterogeneity describes the differences among cancer cells within and between tumors. It
refers to cancer cells describing variations in morphology, transcriptional profiles …

The evolution of tumour phylogenetics: principles and practice

R Schwartz, AA Schäffer - Nature Reviews Genetics, 2017 - nature.com
Rapid advances in high-throughput sequencing and a growing realization of the importance
of evolutionary theory to cancer genomics have led to a proliferation of phylogenetic studies …

Meaningful explanations of black box AI decision systems

D Pedreschi, F Giannotti, R Guidotti… - Proceedings of the …, 2019 - ojs.aaai.org
Black box AI systems for automated decision making, often based on machine learning over
(big) data, map a user's features into a class or a score without exposing the reasons why …

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 …

[HTML][HTML] From genotypes to organisms: State-of-the-art and perspectives of a cornerstone in evolutionary dynamics

S Manrubia, JA Cuesta, J Aguirre, SE Ahnert… - Physics of Life …, 2021 - Elsevier
Understanding how genotypes map onto phenotypes, fitness, and eventually organisms is
arguably the next major missing piece in a fully predictive theory of evolution. We refer to this …

Comparative proteogenomic analysis of right-sided colon cancer, left-sided colon cancer and rectal cancer reveals distinct mutational profiles

R Imperial, Z Ahmed, OM Toor, C Erdoğan, A Khaliq… - Molecular cancer, 2018 - Springer
Right-sided colon cancer (RCC) has worse prognosis compared to left-sided colon cancer
(LCC) and rectal cancer. The reason for this difference in outcomes is not well understood …

[HTML][HTML] Acceptance of near-natural greenspace management relates to ecological and socio-cultural assigned values among European urbanites

J Lampinen, M Tuomi, LK Fischer, L Neuenkamp… - Basic and Applied …, 2021 - Elsevier
Grasslands are widespread elements of urban greenspace providing recreational,
psychological and aesthetic benefits to city residents. Two urban grassland types of …

Recapitulating the adenoma–carcinoma sequence by selection of four spontaneous oncogenic mutations in mismatch-repair-deficient human colon organoids

T Mizutani, M Boretto, S Lim, J Drost, DM González… - Nature cancer, 2024 - nature.com
Carcinogenesis results from the sequential acquisition of oncogenic mutations that convert
normal cells into invasive, metastasizing cancer cells. Colorectal cancer exemplifies this …

Joint inference of exclusivity patterns and recurrent trajectories from tumor mutation trees

XG Luo, J Kuipers, N Beerenwinkel - Nature communications, 2023 - nature.com
Cancer progression is an evolutionary process shaped by both deterministic and stochastic
forces. Multi-region and single-cell sequencing of tumors enable high-resolution …

Evolutionary signatures of human cancers revealed via genomic analysis of over 35,000 patients

D Fontana, I Crespiatico, V Crippa, F Malighetti… - Nature …, 2023 - nature.com
Recurring sequences of genomic alterations occurring across patients can highlight
repeated evolutionary processes with significant implications for predicting cancer …