Nature Search

Last appearance of Homo erectus at Ngandong, Java, 117,000–108,000 years ago

Bayesian modelling of radiometric age estimates provides a robust chronology for Homo erectus at Ngandong (Java), confirming that this site currently represents the last known occurrence of this species.

Yan Rizal
Kira E. Westaway
Russell L. Ciochon
Research18 Dec 2019
Nature

Volume: 577, P: 381-385
Large language models forecast patient health trajectories enabling digital twins

Nikita Makarov
Maria Bordukova
Michael P. Menden
ResearchOpen Access01 Oct 2025
npj Digital Medicine

Volume: 8, P: 1-13
Icebergs boost phytoplankton growth in the Southern Ocean

Jill Schwarz
Michael Schodlok
ResearchOpen Access21 Mar 2008
Nature Precedings

P: 1
Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

Resistance to first line treatment is a major hurdle in cancer treatment, that can be overcome with drug combinations. Here, the authors provide a large drug combination screen across cancer cell lines to benchmark crowdsourced methods and to computationally predict drug synergies.

Michael P. Menden
Dennis Wang
Julio Saez-Rodriguez
ResearchOpen Access17 Jun 2019
Nature Communications

Volume: 10, P: 1-17
The Oncology Biomarker Discovery framework reveals cetuximab and bevacizumab response patterns in metastatic colorectal cancer

Identifying actionable biomarkers remains a challenge. Here, the authors develop a framework Oncology Biomarker Discovery (OncoBird), apply it to a phase III trial and investigate the molecular and biomarker landscape of metastatic colorectal carcinoma patients.

Alexander J. Ohnmacht
Arndt Stahler
Michael P. Menden
ResearchOpen Access04 Sept 2023
Nature Communications

Volume: 14, P: 1-15
Defining subpopulations of differential drug response to reveal novel target populations

Nirmal Keshava
Tzen S. Toh
Dennis Wang
ResearchOpen Access03 Oct 2019
npj Systems Biology and Applications

Volume: 5, P: 1-11
Suppression of ferroptosis by vitamin A or radical-trapping antioxidants is essential for neuronal development

Neuronal development is tightly controlled by nutrients and antioxidants. Here, authors show that ferroptosis, a cell death modality driven by lipid peroxidation, is required to be suppressed by vitamin A or antioxidants to ensure proper neuronal development.

Juliane Tschuck
Vidya Padmanabhan Nair
Kamyar Hadian
ResearchOpen Access01 Sept 2024
Nature Communications

Volume: 15, P: 1-14
The germline genetic component of drug sensitivity in cancer cell lines

Little is known about the contribution of germline genetic variants to cancer drug sensitivity. Here, the authors devise an approach for joint analysis of germline variants and somatic mutations, identifying substantial germline contributions to variation in drug sensitivity.

Michael P. Menden
Francesco Paolo Casale
Oliver Stegle
ResearchOpen Access23 Aug 2018
Nature Communications

Volume: 9, P: 1-8
Prediction of human population responses to toxic compounds by a collaborative competition

Crowdsourcing analysis improves computational prediction of cytotoxic responses in humans.

Federica Eduati
Lara M Mangravite
Julio Saez-Rodriguez
ResearchOpen Access01 Sept 2015
Nature Biotechnology

Volume: 33, P: 933-940
Loss of NEDD8 in cancer cells causes vulnerability to immune checkpoint blockade in triple-negative breast cancer

NEDD8 is a ubiquitin-like protein that governs protein neddylation, previously demonstrated to be essential for cell survival. Here the authors show that NEDD8 loss in breast cancer cells is associated with enhanced immunogenicity and increased sensitivity to PD-1 blockade in preclinical cancer models.

Irineos Papakyriacou
Ginte Kutkaite
Yumeng Mao
ResearchOpen Access27 Apr 2024
Nature Communications

Volume: 15, P: 1-19
Erratum: Prediction of human population responses to toxic compounds by a collaborative competition

Federica Eduati
Lara M Mangravite
Julio Saez-Rodriguez
Amendments and Corrections08 Oct 2015
Nature Biotechnology

Volume: 33, P: 1109
Interpretable multimodal machine learning (IMML) framework reveals pathological signatures of distal sensorimotor polyneuropathy

Nguyen et al. present IMML, an interpretable multimodal machine learning framework that utilizes prior biological knowledge, integrating multiomic and clinical data. IMML successfully predicts and identifies putative modifiable biomarkers for incident distal sensorimotor polyneuropathy.

Phong B. H. Nguyen
Daniel Garger
Michael P. Menden
ResearchOpen Access16 Dec 2024
Communications Medicine

Volume: 4, P: 1-12
Stratification and prediction of drug synergy based on target functional similarity

Mi Yang
Patricia Jaaks
Julio Saez-Rodriguez
ResearchOpen Access02 Jun 2020
npj Systems Biology and Applications

Volume: 6, P: 1-10
A community computational challenge to predict the activity of pairs of compounds

A community computational challenge generates algorithms to predict activity of drug combinations.

Mukesh Bansal
Jichen Yang
Andrea Califano
Research17 Nov 2014
Nature Biotechnology

Volume: 32, P: 1213-1222
A community effort to assess and improve drug sensitivity prediction algorithms

A community of researchers report the lessons learned from applying 44 algorithms to predict drug sensitivity in cancer cell lines using genomic, epigenetic and proteomic datasets

James C Costello
Laura M Heiser
Gustavo Stolovitzky
Research01 Jun 2014
Nature Biotechnology

Volume: 32, P: 1202-1212
Adaptive informatics for multifactorial and high-content biological data

Semantically typed data hypercubes (SDCubes) are described for the flexible management and organization of stored experimental data and are applied to high-content imaging data using the software package ImageRail.

Bjorn L Millard
Mario Niepel
Peter K Sorger
Research24 Apr 2011
Nature Methods

Volume: 8, P: 487-492
Pharmacogenomic agreement between two cancer cell line data sets

In panels of cancer cell lines analysed for their response to drug libraries, some studies have proposed distinct pharmacological sensitivities for some cell lines while other studies have not seen the same trends; here the data in the Cancer Cell Line Encyclopedia and the Genomics of Drug Sensitivity in Cancer are reassessed, and the authors report a stronger degree of concordance between the two data sets than that in a previous study.

Nicolas Stransky
Mahmoud Ghandi
Julio Saez-Rodriguez
Research16 Nov 2015
Nature

Volume: 528, P: 84-87
An open-source robotic platform that enables automated monitoring of replicate biofilm cultivations using optical coherence tomography

Luisa Gierl
Kasper Stoy
Michael Wagner
ResearchOpen Access01 Apr 2020
npj Biofilms and Microbiomes

Volume: 6, P: 1-9
The pharmacoepigenomic landscape of cancer cell lines reveals the epigenetic component of drug sensitivity

A large-scale integrated analysis of differentially methylated sites, genetic, epigenetic, and transcriptomic datasets identifies epigenetic drug response biomarkers across multiple cancer types.

Alexander Joschua Ohnmacht
Anantharamanan Rajamani
Michael Patrick Menden
ResearchOpen Access09 Aug 2023
Communications Biology

Volume: 6, P: 1-11
Exogenous lipase administration alters gut microbiota composition and ameliorates Alzheimer’s disease-like pathology in APP/PS1 mice

Ariane Menden
Davane Hall
Ghania Ait-Ghezala
ResearchOpen Access21 Mar 2022
Scientific Reports

Volume: 12, P: 1-17
Epidemiology of 7375 children and adolescents hospitalized with COVID-19 in Germany, reported via a prospective, nationwide surveillance study in 2020–2022

Maren Doenhardt
Markus Hufnagel
Ulrich Zügge
ResearchOpen Access02 Jan 2024
Scientific Reports

Volume: 14, P: 1-15
Small phytoplankton dominate western North Atlantic biomass

Luis M. Bolaños
Lee Karp-Boss
Stephen J. Giovannoni
ResearchOpen Access30 Mar 2020
The ISME Journal

Volume: 14, P: 1663-1674
A comparison of pediatric inflammatory multisystem syndrome temporarily-associated with SARS-CoV-2 and Kawasaki disease

Markus Hufnagel
Jakob Armann
Ulrich Zügge
ResearchOpen Access20 Jan 2023
Scientific Reports

Volume: 13, P: 1-14
A functional ATG16L1 (T300A) variant is associated with necrotizing enterocolitis in premature infants

Venkatesh Sampath
Vineet Bhandari
Mary Dahmer
Research28 Nov 2016
Pediatric Research

Volume: 81, P: 582-588

Search

Last appearance of Homo erectus at Ngandong, Java, 117,000–108,000 years ago

Large language models forecast patient health trajectories enabling digital twins

Icebergs boost phytoplankton growth in the Southern Ocean

Community assessment to advance computational prediction of cancer drug combinations in a pharmacogenomic screen

The Oncology Biomarker Discovery framework reveals cetuximab and bevacizumab response patterns in metastatic colorectal cancer

Defining subpopulations of differential drug response to reveal novel target populations

Suppression of ferroptosis by vitamin A or radical-trapping antioxidants is essential for neuronal development

The germline genetic component of drug sensitivity in cancer cell lines

Prediction of human population responses to toxic compounds by a collaborative competition

Loss of NEDD8 in cancer cells causes vulnerability to immune checkpoint blockade in triple-negative breast cancer

Erratum: Prediction of human population responses to toxic compounds by a collaborative competition

Interpretable multimodal machine learning (IMML) framework reveals pathological signatures of distal sensorimotor polyneuropathy

Stratification and prediction of drug synergy based on target functional similarity

A community computational challenge to predict the activity of pairs of compounds

A community effort to assess and improve drug sensitivity prediction algorithms

Adaptive informatics for multifactorial and high-content biological data

Pharmacogenomic agreement between two cancer cell line data sets

An open-source robotic platform that enables automated monitoring of replicate biofilm cultivations using optical coherence tomography

The pharmacoepigenomic landscape of cancer cell lines reveals the epigenetic component of drug sensitivity

Exogenous lipase administration alters gut microbiota composition and ameliorates Alzheimer’s disease-like pathology in APP/PS1 mice

Epidemiology of 7375 children and adolescents hospitalized with COVID-19 in Germany, reported via a prospective, nationwide surveillance study in 2020–2022

Small phytoplankton dominate western North Atlantic biomass

A comparison of pediatric inflammatory multisystem syndrome temporarily-associated with SARS-CoV-2 and Kawasaki disease

A functional ATG16L1 (T300A) variant is associated with necrotizing enterocolitis in premature infants

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