bluuebunny/crossref_metadata_2025_split huggingface dataset:
Engineering grain boundaries at the 2D limit for the hydrogen evolution reaction
Authors: He Yongmin , Tang Pengyi , Hu Zhili , He Qiyuan , Zhu Chao , Wang Luqing , Zeng Qingsheng , Golani Prafful , Gao Guanhui , Fu Wei , Huang Zhiqi , Gao Caitian , Xia Juan , Wang Xingli , Wang Xuewen , Zhu Chao , Ramasse Quentin M. , Zhang Ao , An Boxing , Zhang Yongzhe , Martí-Sánchez Sara , Morante Joan Ramon , Wang Liang , Tay Beng Kang , Yakobson Boris I. , Trampert Achim , Zhang Hua , Wu Minghong , Wang Qi Jie , Arbiol Jordi , Liu Zheng 
Published: January 2020

AbstractAtom-thin transition metal dichalcogenides (TMDs) have emerged as fascinating materials and key structures for electrocatalysis. So far, their edges, dopant heteroatoms and defects have been intensively explored as active sites for the hydrogen evolution reaction (HER) to split water. However, grain boundaries (GBs), a key type of defects in TMDs, have been overlooked due to their low density and large structural variations. Here, we demonstrate the synthesis of wafer-size atom-thin TMD films with an ultra-high-density of GBs, up to ~1012 cm−2. We propose a climb and drive 0D/2D interaction to explain the underlying growth mechanism. The electrocatalytic activity of the nanograin film is comprehensively examined by micro-electrochemical measurements, showing an excellent hydrogen-evolution performance (onset potential: −25 mV and Tafel slope: 54 mV dec−1), thus indicating an intrinsically high activation of the TMD GBs.
Gut stem cell aging is driven by mTORC1 via a p38 MAPK-p53 pathway
Authors: He Dan , Wu Hongguang , Xiang Jinnan , Ruan Xinsen , Peng Peike , Ruan Yuanyuan , Chen Ye-Guang , Wang Yibin , Yu Qiang , Zhang Hongbing , Habib Samy L. , De Pinho Ronald A. , Liu Huijuan , Li Baojie 
Published: January 2020

AbstractNutrients are absorbed solely by the intestinal villi. Aging of this organ causes malabsorption and associated illnesses, yet its aging mechanisms remain unclear. Here, we show that aging-caused intestinal villus structural and functional decline is regulated by mTORC1, a sensor of nutrients and growth factors, which is highly activated in intestinal stem and progenitor cells in geriatric mice. These aging phenotypes are recapitulated in intestinal stem cell-specific Tsc1 knockout mice. Mechanistically, mTORC1 activation increases protein synthesis of MKK6 and augments activation of the p38 MAPK-p53 pathway, leading to decreases in the number and activity of intestinal stem cells as well as villus size and density. Targeting p38 MAPK or p53 prevents or rescues ISC and villus aging and nutrient absorption defects. These findings reveal that mTORC1 drives aging by augmenting a prominent stress response pathway in gut stem cells and identify p38 MAPK as an anti-aging target downstream of mTORC1.
Linoleic acid–good or bad for the brain?
Authors: Taha Ameer Y. 
Published: January 2020

AbstractIncreased intake of omega-6 rich plant oils such as soybean and corn oil over the past few decades has inadvertently tripled the amount of n-6 linoleic acid (LA, 18:2n-6) in the diet. Although LA is nutritionally “essential”, very little is known about how it affects the brain when present in excess. This review provides an overview on the metabolism of LA by the brain and the effects of excess dietary LA intake on brain function. Pre-clinical evidence suggests that excess dietary LA increases the brain’s vulnerability to inflammation and likely acts via its oxidized metabolites. In humans, excess maternal LA intake has been linked to atypical neurodevelopment, but underlying mechanisms are unknown. It is concluded that excess dietary LA may adversely affect the brain. The potential neuroprotective role of reducing dietary LA merits clinical evaluation in future studies.
The GenTree Dendroecological Collection, tree-ring and wood density data from seven tree species across Europe
Authors: Martínez-Sancho Elisabet , Slámová Lenka , Morganti Sandro , Grefen Claudio , Carvalho Barbara , Dauphin Benjamin , Rellstab Christian , Gugerli Felix , Opgenoorth Lars , Heer Katrin , Knutzen Florian , von Arx Georg , Valladares Fernando , Cavers Stephen , Fady Bruno , Alía Ricardo , Aravanopoulos Filippos , Avanzi Camilla , Bagnoli Francesca , Barbas Evangelos , Bastien Catherine , Benavides Raquel , Bernier Frédéric , Bodineau Guillaume , Bastias Cristina C. , Charpentier Jean-Paul , Climent José M. , Corréard Marianne , Courdier Florence , Danusevicius Darius , Farsakoglou Anna-Maria , del Barrio José M. García , Gilg Olivier , González-Martínez Santiago C. , Gray Alan , Hartleitner Christoph , Hurel Agathe , Jouineau Arnaud , Kärkkäinen Katri , Kujala Sonja T. , Labriola Mariaceleste , Lascoux Martin , Lefebvre Marlène , Lejeune Vincent , Le-Provost Grégoire , Liesebach Mirko , Malliarou Ermioni , Mariotte Nicolas , Matesanz Silvia , Michotey Célia , Milesi Pascal , Myking Tor , Notivol Eduardo , Pakull Birte , Piotti Andrea , Plomion Christophe , Pringarbe Mehdi , Pyhäjärvi Tanja , Raffin Annie , Ramírez-Valiente José A. , Ramskogler Kurt , Robledo-Arnuncio Juan J. , Savolainen Outi , Schueler Silvio , Semerikov Vladimir , Spanu Ilaria , Thévenet Jean , Mette Tollefsrud Mari , Turion Norbert , Veisse Dominique , Vendramin Giovanni Giuseppe , Villar Marc , Westin Johan , Fonti Patrick 
Published: January 2020

AbstractThe dataset presented here was collected by the GenTree project (EU-Horizon 2020), which aims to improve the use of forest genetic resources across Europe by better understanding how trees adapt to their local environment. This dataset of individual tree-core characteristics including ring-width series and whole-core wood density was collected for seven ecologically and economically important European tree species: silver birch (Betula pendula), European beech (Fagus sylvatica), Norway spruce (Picea abies), European black poplar (Populus nigra), maritime pine (Pinus pinaster), Scots pine (Pinus sylvestris), and sessile oak (Quercus petraea). Tree-ring width measurements were obtained from 3600 trees in 142 populations and whole-core wood density was measured for 3098 trees in 125 populations. This dataset covers most of the geographical and climatic range occupied by the selected species. The potential use of it will be highly valuable for assessing ecological and evolutionary responses to environmental conditions as well as for model development and parameterization, to predict adaptability under climate change scenarios.
PGxCorpus, a manually annotated corpus for pharmacogenomics
Authors: Legrand Joël , Gogdemir Romain , Bousquet Cédric , Dalleau Kevin , Devignes Marie-Dominique , Digan William , Lee Chia-Ju , Ndiaye Ndeye-Coumba , Petitpain Nadine , Ringot Patrice , Smaïl-Tabbone Malika , Toussaint Yannick , Coulet Adrien 
Published: January 2020

AbstractPharmacogenomics (PGx) studies how individual gene variations impact drug response phenotypes, which makes PGx-related knowledge a key component towards precision medicine. A significant part of the state-of-the-art knowledge in PGx is accumulated in scientific publications, where it is hardly reusable by humans or software. Natural language processing techniques have been developed to guide experts who curate this amount of knowledge. But existing works are limited by the absence of a high quality annotated corpus focusing on PGx domain. In particular, this absence restricts the use of supervised machine learning. This article introduces PGxCorpus, a manually annotated corpus, designed to fill this gap and to enable the automatic extraction of PGx relationships from text. It comprises 945 sentences from 911 PubMed abstracts, annotated with PGx entities of interest (mainly gene variations, genes, drugs and phenotypes), and relationships between those. In this article, we present the corpus itself, its construction and a baseline experiment that illustrates how it may be leveraged to synthesize and summarize PGx knowledge.
Single-cell RNA sequencing of human kidney
Authors: Liao Jinling , Yu Zhenyuan , Chen Yang , Bao Mengying , Zou Chunlin , Zhang Haiying , Liu Deyun , Li Tianyu , Zhang Qingyun , Li Jiaping , Cheng Jiwen , Mo Zengnan 
Published: January 2020

AbstractA comprehensive cellular anatomy of normal human kidney is crucial to address the cellular origins of renal disease and renal cancer. Some kidney diseases may be cell type-specific, especially renal tubular cells. To investigate the classification and transcriptomic information of the human kidney, we rapidly obtained a single-cell suspension of the kidney and conducted single-cell RNA sequencing (scRNA-seq). Here, we present the scRNA-seq data of 23,366 high-quality cells from the kidneys of three human donors. In this dataset, we show 10 clusters of normal human renal cells. Due to the high quality of single-cell transcriptomic information, proximal tubule (PT) cells were classified into three subtypes and collecting ducts cells into two subtypes. Collectively, our data provide a reliable reference for studies on renal cell biology and kidney disease.
The protective role of MiR-206 in regulating cardiomyocytes apoptosis induced by ischemic injury by targeting PTP1B
Authors: Yan Yejun , Dang Hongwei , Zhang Xin , Wang Xia , Liu Xiaodong 
Published: January 2020

Abstract
MicroRNAs play essential roles in the regulation and pathophysiology of acute myocardial infarction (AMI). The purpose of the present study was to assess the expression signature of miR-206 in rat heart with AMI and the corresponding molecular mechanism. The expression of miR-206 significantly decreased in the infarcted myocardial areas and in hypoxia-induced cardiomyocytes, compared with that in the noninfarcted areas. Overexpression of miR-206 decreased cardiomyocytes apoptosis and the down-regulation of miR-206 increased cardiomyocytes apoptosis in vitro. In addition, overexpression of miR-206 in rat heart in vivo remarkably reduced myocardial infarct size and cardiomyocytes apoptosis. We identified that miR-206 had a protective effect on cardiomyocytes apoptosis with the association of its target protein tyrosine phosphatase 1B (PTP1B). Gain-of-function of miR-206 inhibited PTP1B expression and loss-of-function of miR-206 up-regulated PTP1B expression. Furthermore, overexpression of PTP1B significantly increased cardiomyocytes apoptosis. These results together suggest the protective effect of miR-206 against cardiomyocytes apoptosis induced by AMI by targeting PTP1B.
17β-estradiol binding to ERα promotes the progression of prolactinoma through estrogen-response element-induced CaBP-9k up-regulation
Authors: Liu Jun , Han Hao , Lu Wenpeng , Fan Gaoyang 
Published: January 2020

Abstract17β-estradiol (E2) is considered to be an important instigator of prolactinoma, and can positively regulate the expression of calbindin-D9k (CaBP-9k) which contains an estrogen responsive element (ERE) via estrogen receptors (ERs). However, the detailed mechanism of E2 in promoting CaBP-9k expression and their roles in prolactinoma progression remain unclear. Here, we aimed to characterize it. The luciferase gene reporter assay with luc-ERE transfection showed that E2 treatment significantly enhanced the transcriptional level of CaBP-9k, whereas CaBP-9k activity was reduced when GH3 and MMQ cells were treated with AZD9496, an antagonist of ERα. E2 treatment increased the protein expressions of CaBP-9k and ERα but not ERβ, whereas this effect was also abolished when cells were treated with AZD9496. Besides, immunoprecipitation (IP) and immunofluorescence assays demonstrated that CaBP-9k could directly interact with ERα not ERβ, and Chromatin IP (ChIP) assay showed that ERα could bind to ERE of the CaBP-9k promoter. Moreover, cell counting kit-8 (CCK-8) and flow cytometry assays showed that E2 treatment significantly enhanced cell viability and inhibited cell apoptosis, but these effects were all abolished when ERα was down-regulated by short hairpin RNA (shRNA) or inhibited by AZD9496, as well as CaBP-9K suppression in both GH3 and MMQ cell lines. Taken together, these findings indicated that E2 stimulation promoted prolactin cell proliferation and inhibited cell apoptosis through ERα-induced CaBP-9k up-regulation, which then accelerated the advanced progression of prolactinoma.
ERRα activates SHMT2 transcription to enhance the resistance of breast cancer to lapatinib via modulating the mitochondrial metabolic adaption
Authors: Li Xin , Zhang Kejing , Hu Yu , Luo Na 
Published: January 2020

Abstract
Lapatinib, a tyrosine kinase inhibitor, can initially benefit the patients with breast tumors but fails in later treatment due to the inevitable development of drug resistance. Estrogen-related receptor α (ERRα) modulates the metabolic adaptations in lapatinib-resistant cancer cells; however, the underlying mechanism remains unclear. ERRα was predicted to bind to the serine hydroxymethyltransferase 2 (SHMT2) transcription initiation site in the ER- and HER2-positive cell line BT-474; thus, we hypothesize that ERRα might modulate the resistance of breast cancer to lapatinib via regulating SHMT2. In the present study, we revealed that 2.5 and 5 µM lapatinib treatment could significantly decrease the expression and protein levels of ERRα and SHMT2; ERRα and SHMT2 expression and protein levels were significantly up-regulated in breast cancer cells, in particularly in breast cancer cells with resistance to lapatinib. ERRα knockdown restored the inhibitory effects of lapatinib on the BT-474R cell viability and migration; in the meantime, ERRα knockdown rescued the production of reactive oxygen species (ROS) whereas decreased the ratio of glutathione (GSH)/oxidized glutathione (GSSG) upon lapatinib treatment. Via targeting SHMT2 promoter region, ERRα activated the transcription of SHMT2. The effects of ERRα knockdown on BT-474R cells under lapatinib treatment could be significantly reversed by SHMT2 overexpression. In conclusion, ERRα knockdown suppresses the detoxification and the mitochondrial metabolic adaption in breast cancer resistant to lapatinib; ERRα activates SHMT2 transcription via targeting its promoter region, therefore enhancing breast cancer resistance to lapatinib.
Exopolysaccharides isolated from Rhizopus nigricans induced colon cancer cell apoptosis in vitro and in vivo via activating the AMPK pathway
Authors: Lu Yan , Zhang Xiujuan , Wang Jiayue , Chen Kaoshan 
Published: January 2020

Abstract
Colorectal cancer (CRC) is a leading cause of cancer-related human deaths. The exopolysaccharide (EPS1-1), isolated from Rhizopus nigricans, has been described as exhibiting anti-tumor and pro-apoptotic activity against CRC, although the underlying mechanism is poorly understood. Herein, we investigate how EPS1-1 induces apoptosis of CRC cells in vitro and in vivo. Our results show that, in vitro, EPS1-1 suppressed cell growth and facilitated apoptosis in a dose- and time-dependent manner by activating the AMP-activated protein kinase (AMPK) pathway in mouse colon cancer CT26 cells. However, treatment with small interfering RNAs (siRNAs) targeting AMPKα or with compound C, an AMPK inhibitor, interfered with the pro-apoptosis effects of EPS1-1. We also show that EPS1-1 initiated the release of reactive oxygen species (ROS) and liver kinase B1 (LKB1), both of which are necessary signals for AMPK activation. Furthermore, EPS1-1-mediated apoptosis is regulated by inactivation of mammalian target of rapamycin complex 1 (mTORC1) and activation of the jun-NH2 kinase (JNK)-p53 signaling axis dependent on AMPK activation. In vivo, azoxymethane/dextran sulfate sodium (AOM/DSS)-treated CRC mice, when administered EPS1-1, exhibited activation of the AMPK pathway, inhibition of mTORC1, and accumulation of p53 in tumor tissues. Collectively, these findings suggest that EPS1-1-induced apoptosis relies on the activation of the AMPK pathway. The present study provides evidence suggesting that EPS1-1 may be an effective target for development of novel CRC therapeutic agents.
Foam cells promote atherosclerosis progression by releasing CXCL12
Authors: Li Lingxing , Du Zhenlan , Rong Bing , Zhao Dapeng , Wang Aiping , Xu Yuzhen , Zhang Huanyi , Bai Xue , Zhong Jingquan 
Published: January 2020

Abstract
Background: Atherosclerosis (AS) is a chronic inflammatory disease that contributes to multiple cardiovascular diseases (CVDs), and foam cell formation plays important roles in the progression of AS. There is an urgent need to identify new molecular targets for treating AS, and thereby improve the quality of life and reduce the financial burden of individuals with CVD.
Methods: An in vitro model of AS was generated by treating THP-1 cells and human aortic vascular smooth muscle cells (HA-VSMCs) with oxidized low-density lipoproteins (ox-LDLs). HA-VSMC proliferation and foam cell formation were detected by the MTT assay and Oil Red O staining. C–X–C motif chemokine 12 (CXCL12) expression was suppressed by siRNA. An AS rat model was established by feeding rats a high-fat diet and vitamin D2 for 3 weeks. Histopathology examinations were conducted by Hematoxylin and Eosin (H&E) staining and the levels ionized calcium-binding adapter molecule 1 (IBA1) and α smooth muscle actin (α-SMA) expression were determined by ELISA assays and immunohistochemistry.
Results: An in vitro model of AS was established with THP-1 cells. CXCL12 expression in the model THP-1 cells was significantly increased when compared with its expression in control cells. Suppression of CXCL12 expression reduced the progression of AS in the cell model. Moreover, CXCL12 promoted AS in the in vivo rat model.
Conclusion: Our results suggest that CXCL12 plays an important role in promoting the progression of AS. Furthermore, inhibition of CXCL12 might suppress the development of AS by inhibiting HA-VSMC proliferation and their transformation to foam cells.
Wideband 67−116 GHz receiver development for ALMA Band 2
Authors: Yagoubov P. , Mroczkowski T. , Belitsky V. , Cuadrado-Calle D. , Cuttaia F. , Fuller G. A. , Gallego J.-D. , Gonzalez A. , Kaneko K. , Mena P. , Molina R. , Nesti R. , Tapia V. , Villa F. , Beltrán M. , Cavaliere F. , Ceru J. , Chesmore G. E. , Coughlin K. , De Breuck C. , Fredrixon M. , George D. , Gibson H. , Golec J. , Josaitis A. , Kemper F. , Kotiranta M. , Lapkin I. , López-Fernández I. , Marconi G. , Mariotti S. , McGenn W. , McMahon J. , Murk A. , Pezzotta F. , Phillips N. , Reyes N. , Ricciardi S. , Sandri M. , Strandberg M. , Terenzi L. , Testi L. , Thomas B. , Uzawa Y. , Viganò D. , Wadefalk N. 
Published: January 2020

Context. The Atacama Large Millimeter/submillimeter Array (ALMA) has been in operation since 2011, but it has not yet been populated with the full suite of its planned frequency bands. In particular, ALMA Band 2 (67−90 GHz) is the final band in the original ALMA band definition to be approved for production.
Aims. We aim to produce a wideband, tuneable, sideband-separating receiver with 28 GHz of instantaneous bandwidth per polarisation operating in the sky frequency range of 67−116 GHz. Our design anticipates new ALMA requirements following the recommendations of the 2030 ALMA Development Roadmap.
Methods. The cryogenic cartridge is designed to be compatible with the ALMA Band 2 cartridge slot, where the coldest components – the feedhorns, orthomode transducers, and cryogenic low noise amplifiers – operate at a temperature of 15 K. We use multiple simulation methods and tools to optimise our designs for both the passive optics and the active components. The cryogenic cartridge is interfaced with a room-temperature (warm) cartridge hosting the local oscillator and the downconverter module. This warm cartridge is largely based on GaAs semiconductor technology and is optimised to match the cryogenic receiver bandwidth with the required instantaneous local oscillator frequency tuning range.
Results. Our collaboration has resulted in the design, fabrication, and testing of multiple technical solutions for each of the receiver components, producing a state-of-the-art receiver covering the full ALMA Band 2 and 3 atmospheric window. The receiver is suitable for deployment on ALMA in the coming years and it is capable of dual-polarisation, sideband-separating observations in intermediate frequency bands spanning 4−18 GHz for a total of 28 GHz on-sky bandwidth per polarisation channel.
Conclusions. We conclude that the 67−116 GHz wideband implementation for ALMA Band 2 is now feasible and that this receiver provides a compelling instrumental upgrade for ALMA that will enhance observational capabilities and scientific reach.
Luteolin Attenuates Diabetic Nephropathy
through Suppressing Inflammatory Response and
Oxidative Stress by Inhibiting STAT3
Pathway
Authors: Zhang Miaoyuan , He Liyu , Liu Jingsong , Zhou Lin 
Published: January 2020

Abstract
Background Diabetic nephropathy (DN) is the
leading cause of end-stage renal disease (ESRD).
DN has many pathological changes, but tubular
injury is considered to be a crucial pathological
feature and plays a key role in the progression of
DN. Accumulating studies have confirmed that
Luteolin (3,4,5,7-tetrahydroxyflavone, Lut)
possesses anti-inflammatory and antioxidant
activities, which may play a role in kidney
protection in DN.
Objectives This paper described the effects
of Lut on appropriated tubular injury in the
kidneys of db/db mice and searched the possible
mechanisms underlying the kidney protection effect
in DN.
Methods Twelve-week-old male C57BL/6 J
db/db and C57BL/6 J db/m mice were used for the
animal experiments. They were organized into the
following five groups for the animal experiments:
a db/m group (control, n=6); a db/db group(n=8) ;
a db/db group receiving Lut (10 mg/kg/day,
n=8)treatment by oral gavage; a db/db group
receiving stattic (a selective STAT3
inhibitor,50 mg/Kg/day, n=8) treatment by oral
gavage and a db/db group receiving both stattic
and Lut treatment by oral gavage.
Results In this study, we found that Lut
might ameliorate glomerular sclerosis and
interstitial fibrosis in DN mouse models through
inhibiting the inflammatory response and oxidative
stress. And it might play its biological function
mainly through repressing the STAT3
activation.
Conclusions Lut attenuates DN mainly via
suppression of inflammatory response and oxidative
response. STAT3 pathway is the potential target,
which ultimately reduces renal fibrosis and delays
the progress of DN.