Nature Search

Tailoring the resolution of single-cell RNA sequencing for primary cytotoxic T cells

Single-cell RNA-seq offers the opportunity to improve efficacy of T-cell based immunotherapy. Here the authors develop a plate-based method for cytotoxic T cell profiling. It captures a higher number of transcripts and detects gene with increased dynamic range in comparison to droplet-based methods.

Kristiyan Kanev
Patrick Roelli
Dietmar Zehn
ResearchOpen Access25 Jan 2021
Nature Communications

Volume: 12, P: 1-11
Detection of isoforms and genomic alterations by high-throughput full-length single-cell RNA sequencing in ovarian cancer

Long-read single-cell RNA sequencing is capable of detecting isoform-level gene expression and genomic alterations such as mutations and gene fusions, thereby providing cell-specific genotype-phenotype information. Here, the authors use long-read scRNA-seq on metastatic ovarian cancer samples and detect cell-type specific isoforms and gene fusions that may otherwise be misclassified in short-read data.

Arthur Dondi
Ulrike Lischetti
Niko Beerenwinkel
ResearchOpen Access27 Nov 2023
Nature Communications

Volume: 14, P: 1-19
Fatty Acid-Induced Injury in Developing Piglet Intestine: Effect of Degree of Saturation and Carbon Chain Length

Otto R Velasquez
Patrick Tso
Karen D Crissinger
Research01 Jun 1993
Pediatric Research

Volume: 33, P: 543-547
Epigenetic therapy potentiates transposable element transcription to create tumor-enriched antigens in glioblastoma cells

Treatment of primary glioblastoma cell lines with epigenetic therapy reactivates transposable elements (TEs). TE-derived transcripts can produce human leukocyte antigen class I-presented antigens, which could potentially be therapeutically targeted.

H. Josh Jang
Nakul M. Shah
Ting Wang
Research02 Sept 2024
Nature Genetics

Volume: 56, P: 1903-1913
A transcriptomic atlas of aged human microglia

Aging is associated with various changes in the brain, including transcription alteration. Here, Bradshaw and colleagues describe the transcriptome of aged human cortical microglia, and show age-related gene expression as related to neurodegeneration.

Marta Olah
Ellis Patrick
Elizabeth M. Bradshaw
ResearchOpen Access07 Feb 2018
Nature Communications

Volume: 9, P: 1-8
Platelet GPIbα is a mediator and potential interventional target for NASH and subsequent liver cancer

Blockade of intrahepatic accumulation and function of platelets represents a potential approach to treat non-alcoholic steatohepatitis (NASH) and prevent subsequent progression to hepatocellular carcinoma

Mohsen Malehmir
Dominik Pfister
Mathias Heikenwalder
Research01 Apr 2019
Nature Medicine

Volume: 25, P: 641-655
A spatiotemporal atlas of mouse liver homeostasis and regeneration

A Stereo-seq and scRNA-seq atlas of mouse liver in homeostasis and regeneration after partial hepatectomy identifies zonated genes, pathways, cell–cell interactions and gene regulatory networks. Functional validation finds that cooperation between TBL1XR1 and β-catenin activates hepatocyte proliferation.

Jiangshan Xu
Pengcheng Guo
Miguel A. Esteban
Research16 Apr 2024
Nature Genetics

Volume: 56, P: 953-969
Positively supercoiled DNA in a virus-like particle of an archaebacterium

Marc Nadal
Gilles Mirambeau
Michel Duguet
Research15 May 1986
Nature

Volume: 321, P: 256-258
Circadian control of bile acid synthesis by a KLF15-Fgf15 axis

Bile acids are important for the absorption of nutrients. Here the authors provide a molecular explanation for the oscillatory release of bile acids, showing that diurnal expression of the transcription factor KLF15 regulates FGF15 secretion from enterocytes, which then inhibits bile acid synthesis in the liver.

Shuxin Han
Rongli Zhang
Mukesh K. Jain
ResearchOpen Access04 Jun 2015
Nature Communications

Volume: 6, P: 1-9
Spatial transcriptomic analysis of cryosectioned tissue samples with Geo-seq

Geo-seq combines laser capture microdissection and single-cell RNA-seq technology to enable transcriptome analysis of small quantities of cells from defined geographical locations.

Jun Chen
Shengbao Suo
Naihe Jing
Protocols16 Feb 2017
Nature Protocols

Volume: 12, P: 566-580
NASC-seq monitors RNA synthesis in single cells

Sequencing of newly synthesised RNA can reveal the transcriptional dynamics in a population of cells. Here the authors develop NASC-seq to bring this sensitivity and temporal resolution to single-cell analysis.

Gert-Jan Hendriks
Lisa A. Jung
Rickard Sandberg
ResearchOpen Access17 Jul 2019
Nature Communications

Volume: 10, P: 1-9
The electroencephalography protocol for the Accelerating Medicines Partnership® Schizophrenia Program: Reliability and stability of measures

Daniel H. Mathalon
Spero Nicholas
Gregory A. Light
ResearchOpen Access06 Jun 2025
Schizophrenia

Volume: 11, P: 1-18
Transport functions of intestinal lymphatic vessels

Lymphatic vessels are important for fluid absorption and immune cell transport. This Review discusses the role of the intestinal lymphatic system in transport and inter-organ communication, exploring lipid absorption mechanisms, gut microenvironment influences, immune cell trafficking and intestinal lymphatics as a drug delivery system.

Patrick Tso
Jeremiah Bernier-Latmani
Min Liu
Reviews04 Nov 2024
Nature Reviews Gastroenterology & Hepatology

Volume: 22, P: 127-145
Identification of HIV transmitting CD11c⁺ human epidermal dendritic cells

Composition and function of immune populations at barrier surfaces is crucial for response to infection. Here, the authors identify a population of dendritic cells in human epidermis, abundant in anogenital epithelia and distinct from Langerhans cells by surface phenotype and by high capacity for HIV infection and transmission.

Kirstie M. Bertram
Rachel A. Botting
Andrew N. Harman
ResearchOpen Access21 Jun 2019
Nature Communications

Volume: 10, P: 1-15
Correction: Corrigendum: Circadian control of bile acid synthesis by a KLF15-Fgf15 axis

Shuxin Han
Rongli Zhang
Mukesh K. Jain
Amendments and CorrectionsOpen Access27 Aug 2015
Nature Communications

Volume: 6, P: 1
Sequence determinants of human gene regulatory elements

Analysis of massively parallel reporter assays measuring the transcriptional activity of DNA sequences indicates that most transcription factor (TF) activity is additive and does not rely on specific TF–TF interactions. Individual TFs can have different gene regulatory activities.

Biswajyoti Sahu
Tuomo Hartonen
Jussi Taipale
ResearchOpen Access21 Feb 2022
Nature Genetics

Volume: 54, P: 283-294
Human anogenital monocyte-derived dendritic cells and langerin+cDC2 are major HIV target cells

Epithelial tissue mononuclear phagocytes (MNP) can transmit HIV to CD4 T cells, but less is known about sub-epithelial cells. Here, the authors describe MNPs in human anogenital and colorectal tissues and find that CD14⁺CD1c⁺ monocyte-derived dendritic cells and langerin-expressing conventional dendritic cells 2 preferentially take up and transmit HIV.

Jake W. Rhodes
Rachel A. Botting
Andrew N. Harman
ResearchOpen Access12 Apr 2021
Nature Communications

Volume: 12, P: 1-15
Spatial and single-cell profiling of the metabolome, transcriptome and epigenome of the aging mouse liver

Using spatial and single-cell multiomics, Nikopoulou et al analyze how different cells within the mouse liver age, revealing zonation-specific aging trajectories and highlighting the importance of the local tissue microenvironment.

Chrysa Nikopoulou
Niklas Kleinenkuhnen
Peter Tessarz
ResearchOpen Access09 Nov 2023
Nature Aging

Volume: 3, P: 1430-1445
XX sex chromosome complement promotes atherosclerosis in mice

Men and women differ in their risk of developing coronary artery disease, in part due to differences in their levels of sex hormones. Here, AlSiraj et al. show that the XX sex genotype regulates lipid metabolism and promotes atherosclerosis independently of sex hormones in mice.

Yasir AlSiraj
Xuqi Chen
Lisa A. Cassis
ResearchOpen Access14 Jun 2019
Nature Communications

Volume: 10, P: 1-13
Immunogenicity and reactogenicity of SARS-CoV-2 vaccines BNT162b2 and CoronaVac in healthy adolescents

There are adverse events associated with COVID-19 vaccines, such as myocarditis for adolescents following receipt of SARS-CoV-2 mRNA vaccines. Here the authors compare the immunogenicity and reactogenicity of two widely available SARS-CoV-2 vaccines (BNT162b2, an mRNA vaccine, and CoronaVac, a whole-virus inactivated vaccine) in healthy adolescents.

Jaime S. Rosa Duque
Xiwei Wang
Yu Lung Lau
ResearchOpen Access28 Jun 2022
Nature Communications

Volume: 13, P: 1-15
ApoA-IV improves insulin sensitivity and glucose uptake in mouse adipocytes via PI3K-Akt Signaling

Xiaoming Li
Fei Wang
Patrick Tso
ResearchOpen Access24 Jan 2017
Scientific Reports

Volume: 7, P: 1-11
Diverse Marinimicrobia bacteria may mediate coupled biogeochemical cycles along eco-thermodynamic gradients

Little is known about Marinimicrobia, a group of bacteria that are prevalent in the oceans. Here, the authors study global populations of Marinimicrobia using single-cell genomics, metagenomics and metatranscriptomics, showing potential co-metabolic interactions and participation in the sulfur and nitrogen cycles.

Alyse K. Hawley
Masaru K. Nobu
Steven J. Hallam
ResearchOpen Access15 Nov 2017
Nature Communications

Volume: 8, P: 1-10
Assessment of patient follow-up from student-run free eye clinic to county ophthalmology clinic

Melanie Scheive
Lucas W. Rowe
Chi Wah Rudy Yung
ResearchOpen Access19 Jan 2022
Scientific Reports

Volume: 12, P: 1-7
Brain glucose metabolism controls the hepatic secretion of triglyceride-rich lipoproteins

Tony K T Lam
Roger Gutierrez-Juarez
Luciano Rossetti
Research04 Feb 2007
Nature Medicine

Volume: 13, P: 171-180
Insights into the phylogeny and coding potential of microbial dark matter

Uncultivated archaeal and bacterial cells of major uncharted branches of the tree of life are targeted and sequenced using single-cell genomics; this enables resolution of many intra- and inter-phylum-level relationships, uncovers unexpected metabolic features that challenge established boundaries between the three domains of life, and leads to the proposal of two new superphyla.

Christian Rinke
Patrick Schwientek
Tanja Woyke
ResearchOpen Access14 Jul 2013
Nature

Volume: 499, P: 431-437
Author Correction: Immunogenicity and reactogenicity of SARS-CoV-2 vaccines BNT162b2 and CoronaVac in healthy adolescents

Jaime S. Rosa Duque
Xiwei Wang
Yu Lung Lau
Amendments and CorrectionsOpen Access15 Aug 2022
Nature Communications

Volume: 13, P: 1
Apolipoprotein A-IV binds αIIbβ3 integrin and inhibits thrombosis

Activation of integrin αIIbβ3 at the surface of platelets is required for their aggregation and for thrombus formation. Here Xu et al. identify apolipoprotein A-IV as a novel ligand for platelet αIIbβ3 integrin, and find it inhibits platelet aggregation and thrombosis.

Xiaohong Ruby Xu
Yiming Wang
Heyu Ni
ResearchOpen Access06 Sept 2018
Nature Communications

Volume: 9, P: 1-18
Impact of nutritional supplements on cognitive development of children in developing countries: A meta-analysis

Patrick Ip
Frederick Ka Wing Ho
Kam Lun Hon
ResearchOpen Access06 Sept 2017
Scientific Reports

Volume: 7, P: 1-9
Small-molecule activation of the TRAIL receptor DR5 in human cancer cells

Bioymifi, a small-molecule death receptor 5 (DR5) agonist, induces selective cancer cell apoptosis as a single agent or in synergy with small-molecule Smac mimetics.

Gelin Wang
Xiaoming Wang
Xiaodong Wang
Research23 Dec 2012
Nature Chemical Biology

Volume: 9, P: 84-89
Worsening of an existing hemispheric retinal vein occlusion following further hypotony procedure

Peck-Lin Lip
Patrick G Corridan
Correspondence01 May 2000
Eye

Volume: 14, P: 402-404
Unlocking the potential of experimental evolution to study drug resistance in pathogenic fungi

Stef Jacobs
Giorgio Boccarella
Hans Carolus
ReviewsOpen Access12 Dec 2024
npj Antimicrobials and Resistance

Volume: 2, P: 1-14
Normative values of motor performance and their relationship with BMI status in Hong Kong preschoolers

Ka-Man Yip
Hung-Kwan So
Patrick Ip
ResearchOpen Access19 Mar 2024
Scientific Reports

Volume: 14, P: 1-9
Regulation of intestinal lipid metabolism: current concepts and relevance to disease

The small intestine is a key site for the absorption of nutrients, including lipids. In this Review, the physiology and biochemistry of intestinal fat absorption during health and disease is discussed, including insights into enterocyte biology and clinical disorders of intestinal fat absorption.

Chih-Wei Ko
Jie Qu
Patrick Tso
Reviews03 Feb 2020
Nature Reviews Gastroenterology & Hepatology

Volume: 17, P: 169-183
Associations between childhood maltreatment and psychiatric disorders: analysis from electronic health records in Hong Kong

Rosa S. Wong
Keith T. S. Tung
Patrick Ip
ResearchOpen Access06 Jun 2022
Translational Psychiatry

Volume: 12, P: 1-7
Early-life activities mediate the association between family socioeconomic status in early childhood and physical fitness in early adolescence

Rosa S. Wong
Keith T. S. Tung
Patrick Ip
ResearchOpen Access07 Jan 2022
Scientific Reports

Volume: 12, P: 1-10
Low-density lipoprotein receptor-related protein 1 (LRP1) is a novel receptor for apolipoprotein A4 (APOA4) in adipose tissue

Jie Qu
Sarah Fourman
Aditi Bhargava
ResearchOpen Access24 Jun 2021
Scientific Reports

Volume: 11, P: 1-14
Aberrant development of excitatory circuits to inhibitory neurons in the primary visual cortex after neonatal binocular enucleation

Rongkang Deng
Joseph P. Y. Kao
Patrick O. Kanold
ResearchOpen Access04 Feb 2021
Scientific Reports

Volume: 11, P: 1-18
Early sleep deprivation and attention-deficit/hyperactivity disorder

Winnie Tso
Meanne Chan
Patrick Ip
Research17 Jan 2019
Pediatric Research

Volume: 85, P: 449-455
Phylogeny and physiology of candidate phylum ‘Atribacteria’ (OP9/JS1) inferred from cultivation-independent genomics

Masaru K Nobu
Jeremy A Dodsworth
Brian P Hedlund
Research19 Jun 2015
The ISME Journal

Volume: 10, P: 273-286
Genomic composition and dynamics among Methanomicrobiales predict adaptation to contrasting environments

Patrick Browne
Hideyuki Tamaki
Hinsby Cadillo-Quiroz
Research23 Aug 2016
The ISME Journal

Volume: 11, P: 87-99

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