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Author Correction: Multiscale reorganization of the genome following DNA damage facilitates chromosome translocations via nuclear actin polymerization

Jennifer Zagelbaum
Allana Schooley
Jean Gautier
Amendments and CorrectionsOpen Access14 Apr 2023
Nature Structural & Molecular Biology

Volume: 30, P: 1048
Evaluating the role of ChatGPT in enhancing EFL writing assessments in classroom settings: A preliminary investigation

Junfei Li
Jinyan Huang
Patrick B. Whipple
ResearchOpen Access27 Sept 2024
Humanities and Social Sciences Communications

Volume: 11, P: 1-9
Multiscale reorganization of the genome following DNA damage facilitates chromosome translocations via nuclear actin polymerization

Here the authors report a genomic view of 3D chromatin reorganization following DNA damage. Movement of damaged DNA into nuclear domains, which is brought about by nuclear actin, favors error-free damage repair at the expense of rare chromosome rearrangements with oncogenic potential.

Jennifer Zagelbaum
Allana Schooley
Jean Gautier
ResearchOpen Access23 Dec 2022
Nature Structural & Molecular Biology

Volume: 30, P: 99-106
Author Correction: Immune and genomic correlates of response to anti-PD-1 immunotherapy in glioblastoma

Junfei Zhao
Andrew X. Chen
Raul Rabadan
Amendments and Corrections17 Apr 2019
Nature Medicine

Volume: 25, P: 1022
Very low mutation burden is a feature of inflamed recurrent glioblastomas responsive to cancer immunotherapy

Recurrent glioblastomas (rGBM) have dismal outcomes, but long-term survival has been observed in subsets of patients after immunotherapy. Here the authors report a positive association between low tumor mutation burden, inflammatory gene signatures, and survival after immunotherapy in rGBM patients.

Matthias Gromeier
Michael C. Brown
David M. Ashley
ResearchOpen Access13 Jan 2021
Nature Communications

Volume: 12, P: 1-7
Opportunistic assessment of variations in tissue composition content using chest QCT

Jujia Li
Wei Zhang
Jian Zhao
ResearchOpen Access28 Jul 2025
Scientific Reports

Volume: 15, P: 1-11
A structurally informed human protein–protein interactome reveals proteome-wide perturbations caused by disease mutations

Protein–protein interactomes incorporating structural data predict the functional consequences of disease mutations.

Dapeng Xiong
Yunguang Qiu
Haiyuan Yu
Research24 Oct 2024
Nature Biotechnology

Volume: 43, P: 1510-1524
Comprehensive characterization of protein–protein interactions perturbed by disease mutations

Human disease mutations affect protein–protein interfaces in a three-dimensional structurally resolved interaction network. Predicted oncoPPIs in cancer correlate with survival and drug sensitivity, and affect growth in vitro, supporting their relevance to disease pathogenesis.

Feixiong Cheng
Junfei Zhao
Joseph Loscalzo
Research08 Feb 2021
Nature Genetics

Volume: 53, P: 342-353
Cloning southern corn rust resistant gene RppK and its cognate gene AvrRppK from Puccinia polysora

Southern corn rust (SCR) caused by Puccinia polysora is a major maize disease that can result in major yield loss. Here, the authors report the expression of a CC-NB-LRR type of R gene RppK results in SCR resistance in susceptible maize lines and it can recognize the effector AvrRppK produced by P. polysora.

Gengshen Chen
Bao Zhang
Zhibing Lai
ResearchOpen Access29 Jul 2022
Nature Communications

Volume: 13, P: 1-11
Checkpoint kinase 1/2 inhibition potentiates anti-tumoral immune response and sensitizes gliomas to immune checkpoint blockade

Immunotherapies have shown limited efficacy in patients with glioma. Here, based on an in vivo kinome knockout CRISPR screen, the authors show that checkpoint kinase 2 promotes CD8 T cell immune evasion and that its depletion or inhibition improve survival and response to PD1/PDL1 blockade in preclinical glioma models.

Crismita Dmello
Junfei Zhao
Adam M. Sonabend
ResearchOpen Access22 Mar 2023
Nature Communications

Volume: 14, P: 1-18
Enhancing sorption kinetics by oriented and single crystalline array-structured ZSM-5 film on monoliths

Here authors present a distribution of oriented pores and single crystalline array structures in the presence of abundant acid sites in ZSM-5 nanorod arrays grown on monoliths. Enhanced dynamics and improved capacity are exhibited simultaneously in propene capture at low temperature within a short duration.

Junfei Weng
Chunxiang Zhu
Pu-Xian Gao
ResearchOpen Access02 Jul 2024
Nature Communications

Volume: 15, P: 1-10
ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma

In two cohorts of patients with glioblastoma who received anti-PD-1, Sonabend and colleagues show that ERK1/2 phosphorylation, detected by immunohistochemistry, provides a biomarker for MAPK/ERK pathway activity and better survival on this therapy.

Víctor A. Arrieta
Andrew X. Chen
Adam M. Sonabend
Research29 Nov 2021
Nature Cancer

Volume: 2, P: 1372-1386
Publisher Correction: ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma

Víctor A. Arrieta
Andrew X. Chen
Adam M. Sonabend
Amendments and Corrections11 Feb 2022
Nature Cancer

Volume: 3, P: 373
ATR kinase supports normal proliferation in the early S phase by preventing replication resource exhaustion

The ATR kinase has essential functions apart from its role in DNA replication stress. Here the authors find that in mouse primary B cells ATR tempers the pace of origin firing during the early S phase to avoid exhaustion of dNTPs and other replication factors.

Demis Menolfi
Brian J. Lee
Shan Zha
ResearchOpen Access19 Jun 2023
Nature Communications

Volume: 14, P: 1-19
MGMT genomic rearrangements contribute to chemotherapy resistance in gliomas

Chemotherapy resistance in recurrent gliomas is a large hurdle for successful therapy. Here, the authors show that some recurrent gliomas harbour O-6-methylguanine-DNA methyltransferase (MGMT) genomic rearrangements, and in vitro and in vivo these contribute to temozolomide resistance.

Barbara Oldrini
Nuria Vaquero-Siguero
Massimo Squatrito
ResearchOpen Access04 Aug 2020
Nature Communications

Volume: 11, P: 1-10
STING agonist-loaded, CD47/PD-L1-targeting nanoparticles potentiate antitumor immunity and radiotherapy for glioblastoma

Glioblastoma is an immunologically cold tumour, with poor CD8 + T cell infiltration and enrichment in immunosuppressive tumour-associated myeloid cells. Here, the authors generate a bispecific lipid nanoparticle targeting CD47 and PD-L1, combined with a STING agonist, to promote anti-tumour immunity.

Peng Zhang
Aida Rashidi
Maciej S. Lesniak
ResearchOpen Access23 Mar 2023
Nature Communications

Volume: 14, P: 1-19
FYN–TRAF3IP2 induces NF-κB signaling-driven peripheral T-cell lymphoma

Ferrando and colleagues identify FYN–TRAF3IP2 as a recurrent oncogenic gene fusion that promotes angioimmunoblastic T-cell lymphoma and peripheral T-cell lymphoma not otherwise specified through the activation of NF-κB signaling.

Christine S. Moon
Clara Reglero
Adolfo A. Ferrando
Research13 Jan 2021
Nature Cancer

Volume: 2, P: 98-113
A MYC and RAS co-activation signature in localized prostate cancer drives bone metastasis and castration resistance

Using lineage tracing and molecular profiling, Abate-Shen and colleagues identify a Ras and Myc co-activation signature that predicts metastasis and castration resistance in localized prostate cancer.

Juan M. Arriaga
Sukanya Panja
Cory Abate-Shen
Research19 Oct 2020
Nature Cancer

Volume: 1, P: 1082-1096
Mutational and functional genetics mapping of chemotherapy resistance mechanisms in relapsed acute lymphoblastic leukemia

Ferrando and colleagues analyze matched diagnostic and relapsed acute lymphocytic leukemia by whole-genome sequencing, and perform in vitro genome-wide CRISPR screens, to examine alterations associated with chemotherapy resistance.

Koichi Oshima
Junfei Zhao
Adolfo Ferrando
Research19 Oct 2020
Nature Cancer

Volume: 1, P: 1113-1127
Observation of the Zero Doppler Effect

Jia Ran
Yewen Zhang
Hong Chen
ResearchOpen Access05 Apr 2016
Scientific Reports

Volume: 6, P: 1-7
Platelets protect lung from injury induced by systemic inflammatory response

Shuhua Luo
Yabo Wang
Lei Du
ResearchOpen Access03 Feb 2017
Scientific Reports

Volume: 7, P: 1-9
Realizing Tunable Inverse and Normal Doppler Shifts in Reconfigurable RF Metamaterials

Jia Ran
Yewen Zhang
Hong Chen
ResearchOpen Access26 Jun 2015
Scientific Reports

Volume: 5, P: 1-8
Immune and genomic correlates of response to anti-PD-1 immunotherapy in glioblastoma

Genomic, transcriptomic, and microenvironmental analyses of samples from patients with glioblastoma treated with nivolumab or pembrolizumab identifies features associated with treatment response that may help in refining patient stratification.

Junfei Zhao
Andrew X. Chen
Raul Rabadan
Research11 Feb 2019
Nature Medicine

Volume: 25, P: 462-469
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
Effects of enzymatic browning reaction on the usability of tobacco leaves and identification of components of reaction products

Yanjie Chen
Junfei Zhou
Yan Jin
ResearchOpen Access28 Nov 2019
Scientific Reports

Volume: 9, P: 1-24
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
Gasdermin D silencing alleviates airway inflammation and remodeling in an ovalbumin-induced asthmatic mouse model

Jinxiang Wu
Pin Wang
Xin Feng
ResearchOpen Access07 Jun 2024
Cell Death & Disease

Volume: 15, P: 1-14
Function of MYB8 in larch under PEG simulated drought stress

Qingrong Zhao
Huanhuan Xiong
Lei Zhang
ResearchOpen Access17 May 2024
Scientific Reports

Volume: 14, P: 1-17
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
Tumor necrosis factor α inhibition overcomes immunosuppressive M2b macrophage-induced bevacizumab resistance in triple-negative breast cancer

Yu Liu
Xuemei Ji
Tianwu Yang
ResearchOpen Access19 Nov 2020
Cell Death & Disease

Volume: 11, P: 1-13
Identification of potentially oncogenic alterations from tumor-only samples reveals Fanconi anemia pathway mutations in bladder carcinomas

Chioma J Madubata
Alireza Roshan-Ghias
Raul Rabadan
ResearchOpen Access03 Oct 2017
npj Genomic Medicine

Volume: 2, P: 1-10
SIRT1 rs10823108 and FOXO1 rs17446614 responsible for genetic susceptibility to diabetic nephropathy

Yanyan Zhao
Junfang Wei
Liang Feng
ResearchOpen Access31 Aug 2017
Scientific Reports

Volume: 7, P: 1-9
Transcriptional insights into the pyramided resistance to rice bacterial blight

Lifen Gao
Zhiwei Fang
Hai Peng
ResearchOpen Access17 Aug 2018
Scientific Reports

Volume: 8, P: 1-11

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Author Correction: Multiscale reorganization of the genome following DNA damage facilitates chromosome translocations via nuclear actin polymerization

Evaluating the role of ChatGPT in enhancing EFL writing assessments in classroom settings: A preliminary investigation

Multiscale reorganization of the genome following DNA damage facilitates chromosome translocations via nuclear actin polymerization

Author Correction: Immune and genomic correlates of response to anti-PD-1 immunotherapy in glioblastoma

Very low mutation burden is a feature of inflamed recurrent glioblastomas responsive to cancer immunotherapy

Opportunistic assessment of variations in tissue composition content using chest QCT

A structurally informed human protein–protein interactome reveals proteome-wide perturbations caused by disease mutations

Comprehensive characterization of protein–protein interactions perturbed by disease mutations

Cloning southern corn rust resistant gene RppK and its cognate gene AvrRppK from Puccinia polysora

Checkpoint kinase 1/2 inhibition potentiates anti-tumoral immune response and sensitizes gliomas to immune checkpoint blockade

Enhancing sorption kinetics by oriented and single crystalline array-structured ZSM-5 film on monoliths

ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma

Publisher Correction: ERK1/2 phosphorylation predicts survival following anti-PD-1 immunotherapy in recurrent glioblastoma

ATR kinase supports normal proliferation in the early S phase by preventing replication resource exhaustion

MGMT genomic rearrangements contribute to chemotherapy resistance in gliomas

STING agonist-loaded, CD47/PD-L1-targeting nanoparticles potentiate antitumor immunity and radiotherapy for glioblastoma

FYN–TRAF3IP2 induces NF-κB signaling-driven peripheral T-cell lymphoma

A MYC and RAS co-activation signature in localized prostate cancer drives bone metastasis and castration resistance

Mutational and functional genetics mapping of chemotherapy resistance mechanisms in relapsed acute lymphoblastic leukemia

Observation of the Zero Doppler Effect

Platelets protect lung from injury induced by systemic inflammatory response

Realizing Tunable Inverse and Normal Doppler Shifts in Reconfigurable RF Metamaterials

Immune and genomic correlates of response to anti-PD-1 immunotherapy in glioblastoma

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

Effects of enzymatic browning reaction on the usability of tobacco leaves and identification of components of reaction products

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

Gasdermin D silencing alleviates airway inflammation and remodeling in an ovalbumin-induced asthmatic mouse model

Function of MYB8 in larch under PEG simulated drought stress

A community effort to assess and improve drug sensitivity prediction algorithms

Tumor necrosis factor α inhibition overcomes immunosuppressive M2b macrophage-induced bevacizumab resistance in triple-negative breast cancer

Identification of potentially oncogenic alterations from tumor-only samples reveals Fanconi anemia pathway mutations in bladder carcinomas

SIRT1 rs10823108 and FOXO1 rs17446614 responsible for genetic susceptibility to diabetic nephropathy

Transcriptional insights into the pyramided resistance to rice bacterial blight

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