Nature Search

cellSTAAR: incorporating single-cell-sequencing-based functional data to boost power in rare variant association testing of noncoding regions

cellSTAAR advances noncoding rare variant association analysis by integrating single-cell genomics data.

Eric Van Buren
Yi Zhang
Xihong Lin
Research31 Dec 2025
Nature Methods

Volume: 23, P: 338-349
Dynamic release of extracellular particles after opening of the blood-brain barrier predicts glioblastoma susceptibility to paclitaxel

Recently published results from a Phase I trial showed the blood brain barrier could be transiently opened in glioblastoma patients using low-intensity ultrasound and microbubbles. Here, the authors develop a microfluidic chip to capture tumour-derived extracellular vesicles and particles in response to paclitaxel treatment.

Mark W. Youngblood
Abha Kumari
Adam M. Sonabend
ResearchOpen Access16 Dec 2025
Nature Communications

Volume: 16, P: 1-15
Genomic and transcriptomic analyses of aortic stenosis enhance therapeutic target discovery and disease prediction

Multi-ancestry genome-wide and transcriptome-wide association studies of aortic stenosis identify more than 200 independent risk loci and provide insights into its genetic architecture.

Aeron M. Small
Ta-Yu Yang
George Thanassoulis
ResearchOpen Access19 Dec 2025
Nature Genetics

Volume: 58, P: 57-66
A statistical framework for multi-trait rare variant analysis in large-scale whole-genome sequencing studies

MultiSTAAR provides a general and flexible statistical framework for functionally informed multi-trait rare variant analysis of biobank-scale sequencing studies by jointly analyzing multiple traits and incorporating annotation information.

Xihao Li
Han Chen
Xihong Lin
Research07 Feb 2025
Nature Computational Science

Volume: 5, P: 125-143
A framework for detecting noncoding rare-variant associations of large-scale whole-genome sequencing studies

STAARpipeline is a comprehensive framework for flexible and scalable rare-variant association analysis using whole-genome sequencing data and annotation information.

Zilin Li
Xihao Li
Xihong Lin
Research27 Oct 2022
Nature Methods

Volume: 19, P: 1599-1611
Thermal conductivity of high latitude lunar regolith measured by Chandra’s Surface Thermophysical Experiment (ChaSTE) onboard Chandrayaan 3 lander

Nizy Mathew
K. Durga Prasad
Anil Bhardwaj
ResearchOpen Access04 Mar 2025
Scientific Reports

Volume: 15, P: 1-10
Whole genome sequence analysis of blood lipid levels in >66,000 individuals

Although the common genetic variants contributing to blood lipid levels have been studied, the contribution of rare variants is less understood. Here, the authors perform a rare coding and noncoding variant association study of blood lipid levels using whole genome sequencing data.

Margaret Sunitha Selvaraj
Xihao Li
Pradeep Natarajan
ResearchOpen Access11 Oct 2022
Nature Communications

Volume: 13, P: 1-18
Powerful, scalable and resource-efficient meta-analysis of rare variant associations in large whole genome sequencing studies

MetaSTAAR enables functionally informed rare variant association analysis in biobank-scale cohorts using an efficient, sparse matrix approach for summary statistic storage.

Xihao Li
Corbin Quick
Xihong Lin
Research23 Dec 2022
Nature Genetics

Volume: 55, P: 154-164
Polygenic prediction of preeclampsia and gestational hypertension

A multi-ancestry genetic meta-analysis identifies 12 new loci associated with preeclampsia and gestational hypertension and proposes the integration of polygenic scores and clinical factors for disease prediction

Michael C. Honigberg
Buu Truong
Pradeep Natarajan
Research29 May 2023
Nature Medicine

Volume: 29, P: 1540-1549
Predatory cannibalism in Drosophila melanogaster larvae

The adaptive significance of predation on conspecifics in non-carnivorous species is unclear. Here Vijendravarma et al. show that predatory cannibalism in Drosophila larvae has hallmarks of a functional behaviour, is genetically variable, and is favoured during experimental evolution under nutritional stress.

Roshan K. Vijendravarma
Sunitha Narasimha
Tadeusz J. Kawecki
Research30 Apr 2013
Nature Communications

Volume: 4, P: 1-8
Evaluation of cellulase production by endophytic fungi isolated from young and mature leaves of medicinal plants using maize cob substrate

Peter K. Mwendwa
George Isanda Omwenga
Anncarol W Karanja
ResearchOpen Access22 May 2025
Scientific Reports

Volume: 15, P: 1-16
Dynamic incorporation of multiple in silico functional annotations empowers rare variant association analysis of large whole-genome sequencing studies at scale

STAAR is a powerful rare variant association test that incorporates variant functional categories and complementary functional annotations using a dynamic weighting scheme based on annotation principal components. STAAR accounts for population structure and relatedness and is scalable for analyzing large whole-genome sequencing studies.

Xihao Li
Zilin Li
Xihong Lin
Research24 Aug 2020
Nature Genetics

Volume: 52, P: 969-983
Whole-genome sequencing uncovers two loci for coronary artery calcification and identifies ARSE as a regulator of vascular calcification

de Vries, Conomos, Singh and Nicholson et al. identify two additional loci associated with coronary artery calcification (ARSE and MMP16) via a genome-wide association study in 22,400 participants from multiple ancestral groups and prove that ARSE is a mediator of vascular smooth muscle cell calcification and phenotype switching.

Paul S. de Vries
Matthew P. Conomos
Rajeev Malhotra
Research04 Dec 2023
Nature Cardiovascular Research

Volume: 2, P: 1159-1172
Plasma exosomes exacerbate alcohol- and acetaminophen-induced toxicity via CYP2E1 pathway

Mohammad A. Rahman
Sunitha Kodidela
Santosh Kumar
ResearchOpen Access25 Apr 2019
Scientific Reports

Volume: 9, P: 1-10
HIF1A signaling selectively supports proliferation of breast cancer in the brain

The mechanisms underlying the growth of breast cancer metastasis in the brain are unclear. Here, the authors use an intracranial injection mouse model and single-cell analysis of patient circulating tumour cells to demonstrate that increased hypoxic and HIF1A signalling promotes tumour growth in the brain.

Richard Y. Ebright
Marcus A. Zachariah
Shyamala Maheswaran
ResearchOpen Access09 Dec 2020
Nature Communications

Volume: 11, P: 1-13
Refinement of rice blast disease resistance QTLs and gene networks through meta-QTL analysis

Basavantraya Navadagi Devanna
Sumali Sucharita
Tilak Raj Sharma
ResearchOpen Access16 Jul 2024
Scientific Reports

Volume: 14, P: 1-17
A large-scale evaluation of computational protein function prediction

A report on the results of the first large-scale community-based critical assessment of protein function annotation (CAFA) experiment.

Predrag Radivojac
Wyatt T Clark
Iddo Friedberg
ResearchOpen Access27 Jan 2013
Nature Methods

Volume: 10, P: 221-227
Large emissions from floodplain trees close the Amazon methane budget

Methane fluxes from the stems of Amazonian floodplain trees indicate that the escape of soil gas through wetland trees is the dominant source of methane emissions in the Amazon basin.

Sunitha R. Pangala
Alex Enrich-Prast
Vincent Gauci
Research04 Dec 2017
Nature

Volume: 552, P: 230-234
Tamarind Seed (Tamarindus indica) Extract Ameliorates Adjuvant-Induced Arthritis via Regulating the Mediators of Cartilage/Bone Degeneration, Inflammation and Oxidative Stress

Mahalingam S. Sundaram
Mahadevappa Hemshekhar
Kesturu S. Girish
ResearchOpen Access10 Jun 2015
Scientific Reports

Volume: 5, P: 1-13
Methamphetamine induces cardiomyopathy by Sigmar1 inhibition-dependent impairment of mitochondrial dynamics and function

Chowdhury Abdulla and Richa Aishwarya et al. report that methamphetamine exposure in mice leads to cardiomyopathy via the signaling receptor Sigmar1. They find that methamphetamine inhibits Sigmar1, which alters mitochondrial function, and show that their findings are consistent with observations in hearts from human methamphetamine users.

Chowdhury S. Abdullah
Richa Aishwarya
Md. Shenuarin Bhuiyan
ResearchOpen Access17 Nov 2020
Communications Biology

Volume: 3, P: 1-20
SMIM1 variants rs1175550 and rs143702418 independently modulate Vel blood group antigen expression

Mikael K. Christophersen
Magnus Jöud
Björn Nilsson
ResearchOpen Access13 Jan 2017
Scientific Reports

Volume: 7, P: 1-11
Mitogenic synergy through multilevel convergence of hepatocyte growth factor and interleukin-4 signaling pathways

Regina M Day
Lilian Soon
Donald P Bottaro
Research10 Apr 2002
Oncogene

Volume: 21, P: 2201-2211
Tunable transport property of oxygen ion in metal oxide thin film: Impact of electrolyte orientation on conductivity

P. Arunkumar
R. Ramaseshan
K. Suresh Babu
ResearchOpen Access14 Jun 2017
Scientific Reports

Volume: 7, P: 1-18
Exploring the medicinally important secondary metabolites landscape through the lens of transcriptome data in fenugreek (Trigonella foenum graecum L.)

Mahantesha B. N. Naika
Nitish Sathyanarayanan
Ramanathan Sowdhamini
ResearchOpen Access08 Aug 2022
Scientific Reports

Volume: 12, P: 1-13
Biomineral Nano-Theranostic agent for Magnetic Resonance Image Guided, Augmented Radiofrequency Ablation of Liver Tumor

Anusha Ashokan
Vijay Harish Somasundaram
Manzoor Koyakutty
ResearchOpen Access03 Nov 2017
Scientific Reports

Volume: 7, P: 1-15
Folyl polyglutamate synthethase (FPGS) gene polymorphisms may influence methotrexate adverse events in South Indian Tamil Rheumatoid Arthritis patients

Niveditha Muralidharan
Rajan Sundaram
Vir S. Negi
Reviews14 Oct 2019
The Pharmacogenomics Journal

Volume: 20, P: 342-349
Multivariate time series dataset for space weather data analytics

Rafal A. Angryk
Petrus C. Martens
Manolis K. Georgoulis
ResearchOpen Access10 Jul 2020
Scientific Data

Volume: 7, P: 1-13
Anti-Brain Autoantibodies and Altered Excitatory Neurotransmitters in Obsessive–Compulsive Disorder

Sagnik Bhattacharyya
Sumant Khanna
S K Shankar
Research12 Aug 2009
Neuropsychopharmacology

Volume: 34, P: 2489-2496

Search

cellSTAAR: incorporating single-cell-sequencing-based functional data to boost power in rare variant association testing of noncoding regions

Dynamic release of extracellular particles after opening of the blood-brain barrier predicts glioblastoma susceptibility to paclitaxel

Genomic and transcriptomic analyses of aortic stenosis enhance therapeutic target discovery and disease prediction

A statistical framework for multi-trait rare variant analysis in large-scale whole-genome sequencing studies

A framework for detecting noncoding rare-variant associations of large-scale whole-genome sequencing studies

Thermal conductivity of high latitude lunar regolith measured by Chandra’s Surface Thermophysical Experiment (ChaSTE) onboard Chandrayaan 3 lander

Whole genome sequence analysis of blood lipid levels in >66,000 individuals

Powerful, scalable and resource-efficient meta-analysis of rare variant associations in large whole genome sequencing studies

Polygenic prediction of preeclampsia and gestational hypertension

Predatory cannibalism in Drosophila melanogaster larvae

Evaluation of cellulase production by endophytic fungi isolated from young and mature leaves of medicinal plants using maize cob substrate

Dynamic incorporation of multiple in silico functional annotations empowers rare variant association analysis of large whole-genome sequencing studies at scale

Whole-genome sequencing uncovers two loci for coronary artery calcification and identifies ARSE as a regulator of vascular calcification

Plasma exosomes exacerbate alcohol- and acetaminophen-induced toxicity via CYP2E1 pathway

HIF1A signaling selectively supports proliferation of breast cancer in the brain

Refinement of rice blast disease resistance QTLs and gene networks through meta-QTL analysis

A large-scale evaluation of computational protein function prediction

Large emissions from floodplain trees close the Amazon methane budget

Tamarind Seed (Tamarindus indica) Extract Ameliorates Adjuvant-Induced Arthritis via Regulating the Mediators of Cartilage/Bone Degeneration, Inflammation and Oxidative Stress

Methamphetamine induces cardiomyopathy by Sigmar1 inhibition-dependent impairment of mitochondrial dynamics and function

SMIM1 variants rs1175550 and rs143702418 independently modulate Vel blood group antigen expression

Mitogenic synergy through multilevel convergence of hepatocyte growth factor and interleukin-4 signaling pathways

Tunable transport property of oxygen ion in metal oxide thin film: Impact of electrolyte orientation on conductivity

Exploring the medicinally important secondary metabolites landscape through the lens of transcriptome data in fenugreek (Trigonella foenum graecum L.)

Biomineral Nano-Theranostic agent for Magnetic Resonance Image Guided, Augmented Radiofrequency Ablation of Liver Tumor

Folyl polyglutamate synthethase (FPGS) gene polymorphisms may influence methotrexate adverse events in South Indian Tamil Rheumatoid Arthritis patients

Multivariate time series dataset for space weather data analytics

Anti-Brain Autoantibodies and Altered Excitatory Neurotransmitters in Obsessive–Compulsive Disorder

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