bluuebunny/crossref_metadata_2025 huggingface dataset:
Mettl3-catalyzed m
6
A regulates histone modifier and modification expression in self-renewing somatic tissue
Authors: Maldonado López Alexandra M. , Ko Eun Kyung , Huang Sijia , Pacella Gina , Kuprasertkul Nina , D’souza Carina A. , Reyes Hueros Raúl A. , Shen Hui , Stoute Julian , Elashal Heidi , Sinkfield Morgan , Anderson Amy , Prouty Stephen , Li Hua-Bing , Seykora John T. , Liu Kathy Fange , Capell Brian C.
Published: September 2023

N6
-methyladenosine (m
6
A) is the most abundant modification on messenger RNAs (mRNAs) and is catalyzed by methyltransferase-like protein 3 (Mettl3). To understand the role of m
6
A in a self-renewing somatic tissue, we deleted
Mettl3
in epidermal progenitors in vivo. Mice lacking
Mettl3
demonstrate marked features of dysfunctional development and self-renewal, including a loss of hair follicle morphogenesis and impaired cell adhesion and polarity associated with oral ulcerations. We show that Mettl3 promotes the m
6
A-mediated degradation of mRNAs encoding critical histone modifying enzymes. Depletion of Mettl3 results in the loss of m
6
A on these mRNAs and increases their expression and associated modifications, resulting in widespread gene expression abnormalities that mirror the gross phenotypic abnormalities. Collectively, these results have identified an additional layer of gene regulation within epithelial tissues, revealing an essential role for m
6
A in the regulation of chromatin modifiers, and underscoring a critical role for Mettl3-catalyzed m
6
A in proper epithelial development and self-renewal.
AutoCore: A network-based definition of the core module of human autoimmunity and autoinflammation
Authors: Guthrie Julia , Köstel Bal Sevgi , Lombardo Salvo Danilo , Müller Felix , Sin Celine , Hütter Christiane V. R. , Menche Jörg , Boztug Kaan
Published: September 2023

Although research on rare autoimmune and autoinflammatory diseases has enabled definition of nonredundant regulators of homeostasis in human immunity, because of the single gene-single disease nature of many of these diseases, contributing factors were mostly unveiled in sequential and noncoordinated individual studies. We used a network-based approach for integrating a set of 186 inborn errors of immunity with predominant autoimmunity/autoinflammation into a comprehensive map of human immune dysregulation, which we termed “AutoCore.” The AutoCore is located centrally within the interactome of all protein-protein interactions, connecting and pinpointing multidisease markers for a range of common, polygenic autoimmune/autoinflammatory diseases. The AutoCore can be subdivided into 19 endotypes that correspond to molecularly and phenotypically cohesive disease subgroups, providing a molecular mechanism–based disease classification and rationale toward systematic targeting for therapeutic purposes. Our study provides a proof of concept for using network-based methods to systematically investigate the molecular relationships between individual rare diseases and address a range of conceptual, diagnostic, and therapeutic challenges.
Bright circularly polarized photoluminescence in chiral layered hybrid lead-halide perovskites
Authors: Liu Shangpu , Kepenekian Mikaël , Bodnar Stanislav , Feldmann Sascha , Heindl Markus W. , Fehn Natalie , Zerhoch Jonathan , Shcherbakov Andrii , Pöthig Alexander , Li Yang , Paetzold Ulrich W. , Kartouzian Aras , Sharp Ian D. , Katan Claudine , Even Jacky , Deschler Felix
Published: September 2023

Hybrid perovskite semiconductor materials are predicted to lock chirality into place and encode asymmetry into their electronic states, while softness of their crystal lattice accommodates lattice strain to maintain high crystal quality with low defect densities, necessary for high luminescence yields. We report photoluminescence quantum efficiencies as high as 39% and degrees of circularly polarized photoluminescence of up to 52%, at room temperature, in the chiral layered hybrid lead-halide perovskites (R/S/Rac)-3BrMBA
2
PbI
4
[3BrMBA = 1-(3-bromphenyl)-ethylamine]. Using transient chiroptical spectroscopy, we explain the excellent photoluminescence yields from suppression of nonradiative loss channels and high rates of radiative recombination. We further find that photoexcitations show polarization lifetimes that exceed the time scales of radiative decays, which rationalize the high degrees of polarized luminescence. Our findings pave the way toward high-performance solution-processed photonic systems for chiroptical applications and chiral-spintronic logic at room temperature.
Mechanistic constraints on the trade-off between photosynthesis and respiration in response to warming
Authors: Leles Suzana G. , Levine Naomi M.
Published: September 2023

Phytoplankton are responsible for half of all oxygen production and drive the ocean carbon cycle. Metabolic theory predicts that increasing global temperatures will cause phytoplankton to become more heterotrophic and smaller. Here, we uncover the metabolic trade-offs between cellular space, energy, and stress management driving phytoplankton thermal acclimation and how these might be overcome through evolutionary adaptation. We show that the observed relationships between traits such as chlorophyll, lipid content, C:N, and size can be predicted on the basis of the metabolic demands of the cell, the thermal dependency of transporters, and changes in membrane lipids. We suggest that many of the observed relationships are not fixed physiological constraints but rather can be altered through adaptation. For example, the evolution of lipid metabolism can favor larger cells with higher lipid content to mitigate oxidative stress. These results have implications for rates of carbon sequestration and export in a warmer ocean.
Atomic-scale imaging of ytterbium ions in lead halide perovskites
Authors: Xu Wen , Liu Jiamu , Dong Bin , Huang Jindou , Shi Honglong , Xue Xiangxin , Liu Mao
Published: September 2023

Lanthanide-doped lead halide perovskites have demonstrated great potential for photoelectric applications. However, there is a long-standing controversy about the existence of lanthanide ions, e.g., whether the doping of Ln
3+
is successful or not; the substituting sites of Ln
3+
in lead halide perovskites are unclear. We directly identify the doped Yb
3+
in CsPbCl
3
perovskites by using the state-of-the-art transmission electron microscopy and three-dimensional atom probe tomography at atomic scale. Different from the previous assumptions and/or results, we evidence that Yb
3+
simultaneously replace Pb
2+
and occupy the lattice interstitial sites. Furthermore, we directly observe the cluster phenomenon of CsPbCl
3
single crystal at near atomic scale. Density functional theory modeling further confirms and explains the mechanisms of our findings. Our findings thus provide an atomic-level understanding of the doping mechanism in perovskites and will stimulate a further thinking of the doping effect on the performance of perovskites.
L-arabinose affects the growth, biofilm formation, motility, c-di-GMP metabolism, and global gene expression of
Vibrio parahaemolyticus
Authors: Zhang Miaomiao , Luo Xi , Li Xue , Zhang Tingting , Wu Fei , Li Min , Lu Renfei , Zhang Yiquan
Published: September 2023

The L-arabinose inducible pBAD vectors are commonly used to turn on and off the expression of specific genes in bacteria. The utilization of certain carbohydrates can influence bacterial growth, virulence factor production, and biofilm formation.
Vibrio parahaemolyticus
, the causative agent of seafood-associated gastroenteritis, can grow in media with L-arabinose as the sole carbon source. However, the effects of L-arabinose on
V. parahaemolyticus
physiology have not been investigated. In this study, we show that the growth rate, biofilm formation capacity, capsular polysaccharide production, motility, and c-di-GMP production of
V. parahaemolyticus
are negatively affected by L-arabinose. RNA-seq data revealed significant changes in the expression levels of 752 genes, accounting for approximately 15.6% of
V. parahaemolyticus
genes in the presence of L-arabinose. The affected genes included those associated with L-arabinose utilization, major virulence genes, known key biofilm-related genes, and numerous regulatory genes. In the majority of type III secretion system, two genes were upregulated in the presence of L-arabinose, whereas in those of type VI secretion system, two genes were downregulated. Ten putative c-di-GMP metabolism-associated genes were also significantly differentially expressed, which may account for the reduced c-di-GMP levels in the presence of L-arabinose. Most importantly, almost 40 putative regulators were significantly differentially expressed due to the induction by L-arabinose, indicating that the utilization of L-arabinose is strictly regulated by regulatory networks in
V. parahaemolyticus
. The findings increase the understanding of how L-arabinose affects the physiology of
V. parahaemolyticus
. Researchers should use caution when considering the use of L-arabinose inducible pBAD vectors in
V. parahaemolyticus
.

IMPORTANCE

The data in this study show that L-arabinose negatively affects the growth rate, biofilm formation, capsular polysaccharide production, motility, and c-di-GMP production of
V. parahaemolyticus
. The data also clarify the gene expression profiles of the bacterium in the presence of L-arabinose. Significantly differentially expressed genes in response to L-arabinose were involved in multiple cellular pathways, including L-arabinose utilization, virulence factor production, biofilm formation, motility, adaptation, and regulation. The collective findings indicate the significant impact of L-arabinose on the physiology of
V. parahaemolyticus
. There may be similar effects on other species of bacteria. Necessary controls should be established when pBAD vectors must be used for ectopic gene expression.
Virus hijacking of host epigenetic machinery to impair immune response
Authors: Locatelli Maëlle , Faure-Dupuy Suzanne
Published: September 2023

Epigenetic modifications, such as DNA hypermethylation, histone acetylation/methylation, or nucleosome positioning, result in differential gene expression. These modifications can have an impact on various pathways, including host antiviral immune responses. In this review, we summarize the current understanding of epigenetic modifications induced by viruses to counteract host antiviral immune responses, which are crucial for establishing and maintaining infection of viruses. Finally, we provide insights into the potential use of epigenetic modulators in combating viral infections and virus-induced diseases.
Complete genome sequence of a
Staphylococcus condimenti
isolated from a port catheter-associated bloodstream infection
Authors: Berneking Laura , Büttner Henning , Qi Minyue , Günther Thomas , Lehnhoff Daniel , Both Anna , Christner Martin , Wolters Manuel , Alawi Malik , Aepfelbacher Martin , Rohde Holger
Published: September 2023

Here, we describe the complete genome sequence of a
Staphylococcus condimenti
blood culture isolate from a catheter-related bloodstream infection in a male patient.
Super-responders to anti-IL-5/anti-IL-5R are characterised by high sputum eosinophil counts at baseline
Authors: Gerday Sara , Graff Sophie , Moermans Catherine , Guissard Françoise , Paulus Virginie , Henket Monique , Louis Renaud , Schleich Florence
Published: September 2023

Several clinical trials have demonstrated that anti-IL-5(R) biologics were able to improve lung function, asthma control and chronic oral corticosteroid exposure and reduce exacerbations among eosinophilic asthmatic patients. However, a certain variability in clinical responses to anti-IL-5(R) biologics was brought to light. Our study aimed at evaluating the role of baseline sputum eosinophils in identifying super-responders to mepolizumab and benralizumab. Our study reinforces the importance to examine sputum eosinophils in patients suffering from severe asthma before starting a biologic as it is associated with the intensity of response to mepolizumab and benralizumab.
Effects of incubation temperature and maternal phenotype on Baltic herring (Clupea harengus membras) eggs and larvae: an experimental study
Authors: Mäkinen K. , Rajasilta M. , Ruuskanen S. , Karpela T. , Lauerma A. , Sahlstén J.
Published: September 2023

Temperature modifies the reproductive success of fish, yet, in many species, we lack the information on its role in the early development. In this study, the effect of temperature on the relation between maternal traits (length, age, somatic condition, and muscle lipid and ovarian thyroid hormone concentrations), egg quality (fertilization success, development rate, mortality, and hatching success), and offspring traits (size-at-hatch, yolk sac size, and proportion of malformations) were studied in Baltic herring ( Clupea harengus membras) in the northern Baltic Sea. The experiments were conducted at an ambient temperature of 7 °C and at an elevated temperature of 14 °C using 5 to 10 females and 3 replicates per female. The results indicate that elevated temperature may result in a faster developmental rate, a lower early-stage mortality and hatching success, smaller size-at-hatch, a larger yolk sac size, and a higher amount of larval malformations when compared to an ambient temperature. The egg and offspring traits were also associated with the maternal traits, indicating especially that thyroid hormones play a mediating role in the physiological processes.
Assessing future climate trends and implications for managed forests across Canadian ecozones
Authors: Wotherspoon A.R. , Achim A. , Coops N.C.
Published: September 2023

Climate change interacts with ecological processes leading to changes in tree and forest growth rate, biome shifts and species composition, all of which are influenced by disturbances. This study explores future overarching climate trends of eight of Canada's ecozones containing managed forests. For the 2071 to 2100 period, climate projections indicate a warming trend of up to an additional 5.5 °C and an overall increase in annual precipitation. Future trends suggest marked contrast between coastal and interior forests and polarization between western and eastern forests. Warmer temperatures, accumulating degree-days above 5 °C and frost-free days suggest longer and drier growing seasons and greater risk of drought particularly in moisture-limited areas such as montane cordillera, taiga shield and boreal shield ecozones. Warmer temperatures and rising precipitation combined with less snow suggest shorter and wetter future winters. This indicates greater risk of rain-on-snow and freeze-thaw events, flooding and landslides particularly in coastal ecozones. We discuss how these projections are likely to result in shifts in dominant species and abundance, which when coupled with the cumulative effects of future disturbances, is likely to alter future forest dynamics and impact harvestable wood volumes for Canada's forestry industry.
Topology of nonlinearly charged black hole chemistry via massive gravity
Authors: Zhang Meng-Yao , Chen Hao , Hassanabadi Hassan , Long Zheng-Wen , Yang Hui
Published: September 2023

The classification of critical points of charged topological black holes (TBHs) in anti-de Sitter spacetime (AdS) under the Power Maxwell Invariant (PMI)-massive gravity is accomplished within the framework of black hole chemistry (BHC). Considering the grand canonical ensemble (GCE), we show that $$d=4$$

d
=
4

black hole have only one topological class, whereas $$d\ge 5$$

d
≥
5

black holes belong to two different topology classes. Furthermore, the conventional critical point characterized by negative topological charge coincides with the maximum extreme point of temperature; and the novel critical point featuring opposite topological charge corresponds to the minimum extreme point of temperature. With increasing pressure, new phases emerge at the novel critical point while disappear from the conventional one. Moreover, a atypical van der Waals (vdW) behavior is found in $$d\ge 6$$

d
≥
6

dimensions, and the anomaly disappears at the traditional critical point. In the limit of nonlinearity parameter $$s\rightarrow 1$$

s
→
1

, different topology classes are only obtained in the GCE and they may not exist within the canonical ensemble. With the absence of electric potential $$\Phi $$
Φ
, the neutral TBHs share the same topological classification results as the charged TBHs in the GCE of Maxwell-massive gravity.
Determination of Polar Pesticides Based on a Modified QuPPe with Liquid Chromatography Coupled to Tandem Mass Spectrometry
Authors: Türköz Bakirci Gözde
Published: September 2023

An analytical approach for determining polar pesticides using a Hypercarb column that is based on a modified quick polar pesticide (QuPPe) extraction process combined with liquid chromatography-tandem mass spectrometry (LC-MS/MS) was examined. Maleic hydrazide, glyphosate, glufosinate N-acetyl, glufosinate ammonium, fosetyl Al, ethephon, chlormequat chloride, aminomethyl phosphonic acid N-acetyl, aminomethyl phosphonic acid, cyanuric acid, ethylene thiourea, phosphonic acid, propylene thiourea, and acidified methanol solution were used to extract tomato, wheat, olive, sunflower, and herbal tea samples. The amount of solvent, extraction period, and mobile phases used in the experiment were all changed; the analysis included various stationary phases. The method was validated in five matrices spiked at 0.01 and 0.05 mg/kg in accordance with the EU guidance document SANTE/11312/2021 method performance criteria, using six replicates for each concentration for one individual. The limit of detection and limit of quantification (LOQ) values were determined and found to range from 1.82 to 2.44 and 6.07 to 8.13 mg/kg. For all spike levels studied, the approximate recoveries for the pesticides ranged from 85 to 118%, with RSD values of less than 20%. Plant-origin foods from diverse field experiments were effectively processed using the validated approach. This newly developed analytical process can meet the stringent requirements for plant-origin food analysis.
Dual‐Mode Pressure Sensor Integrated with Deep Learning Algorithm for Joint State Monitoring in Tennis Motion
Authors: Gao Jianhui , Li Zhi , Chen Zhong
Published: September 2023

The precise capture and identification of movement features are important for numerous scientific endeavors. In this work, we present a novel multimodal sensor, called the resistance/capacitance dual‐mode (RCDM) sensor, which effectively differentiates between compression and stretchable strains during tennis motion; meanwhile, it can also accurately identify various joint movements. The proposed wearable device features a seamless design, comprising two separate components: a resistive part and a capacitive part. The resistive and capacitive components operate independently and utilize a resistance–capacitance mechanism to measure pressure and strain signals, respectively. The RCDM sensor demonstrates remarkable sensitivity to strains (GF = 7.84, 0%–140%) and exceptional linear sensitivity (S = 4.08 kPa−1) through capacitance. Utilizing machine learning algorithms, the sensor achieves a recognition rate of 97.21% in identifying various joint movement patterns. This advanced production method makes it feasible to manufacture the sensors on a large scale, offering tremendous potential for various applications, including tennis sports systems.
Velocity-Adaptive Prescribed Performance Control for Carrier-Based Aircraft Based on Guardian Maps
Authors: Li Chenliang , Lai Jizhou , Chen Boyi , Liu Yanbin
Published: September 2023

The automatic carrier landing process is a significant and complex due to the plant variation of carrier-based aircraft. To reasonably identify the stability interval for specific performance, an adaptive control strategy based on the guardian map approach is proposed. Prescribed performance, namely, stability margin, damping requirements, or flying quality requirements, is analytically formulated using a guardian map. The null space of guardian maps restricts the prescribed performance regarding the poles’ location. The feasible corridor of control parameters is generated based on the null space of guardian maps. Besides, a velocity-adaptive prescribed performance control method is proposed to conduct the attitude control of carrier-based aircraft. Simulation shows that the short-period mode of carrier-based aircraft will be driven from unstable to stable as the velocity decreases. Moreover, simulation results demonstrate the proposed control method and indicate that the attitude loop control of carrier-based aircraft possesses more underdamped responses as the velocity decreases.
Exploration of Bifunctionality in Mn, Co Codoped CuO Nanoflakes for Overall Water Splitting
Authors: Rani B. Jansi , Mohana P. , Swathi S. , Yuvakkumar R. , Ravi G. , Thambidurai M. , Nguyen Hung D. , Velauthapillai Dhayalan
Published: September 2023

Herein, bimetal (Mn, Co) codoping on a CuO host is aimed at enhancing oxygen evolution reaction (OER) and hydrogen evolution reaction (HER) activity. Codoping of Mn and Co on CuO to enhance bifunctional action in electrochemical water splitting has not yet been investigated to the best of our knowledge. Literatures are focused on unary Mn-doped CuO or Co-doped CuO nanostructures. Mn, Co codoped CuO through an easy chemical coprecipitation method has been successfully attempted and is more beneficial which is the novelty of the present work. Defect-enriched ample active sites (Mn2+/Mn3+ and Co2+/Co3+) along with Cu2+ in the host CuO achieved high current density (100 mA/cm2) in OER and HER with low overpotential such as 468 mV and 271 mV, respectively. Faster charge transfer and diffusion ability was stimulated by the bimetal codoping CuO. Reasonable Tafel plot values (OER: 199 mV/dec, and HER: 21 mV/dec) with improved water-splitting reaction kinetics were achieved for the Mn, Co codoped CuO nanoflakes. The double-layer capacitance (

C

dl

) value of 27.5 mF/cm2 for Mn, Co codoped CuO nanoflakes was achieved. Similarly, the increasing order of an electrochemically active surface area (EASA) was exhibited by the consequent addition of bimetal doping on CuO, denoted as

Mn
,
Co
/
CuO
>
Co
/
CuO
>
Mn
/
CuO
>
CuO

. The evidence shows that the codoping strategy could facilitate rapid reaction kinetics to develop overall water splitting. The charge transfer resistances (

R

ct

) of 3.6 Ω and 1.2 Ω for the Mn, Co codoped CuO nanostructure corresponding to the OER and HER, respectively, were reported. The long-term stability over 16 h with negligible loss was reported for both the OER and the HER performance. Thus, this work contributes to better insight and analysis of the successful codoping of bimetal elements in earth-abundant electrocatalysts to enhance and make practical the electrocatalytic water-splitting activity.
Optimization of Deformation Behaviors during Continuous Forming Extrusion of C18150 Copper Alloy through Response Surface Methodology
Authors: Desta Tariku , Sinha Devendra Kumar , Ramulu Perumalla Janaki
Published: September 2023

Continuous extrusion (CE) is a method of creating endless profiles of high-quality products of dimensional accurateness, high productivity, and excellent material properties. The main objective of this study is to investigate the influence of CE input process parameters on optimal overall extrusion load requirement and effective stress induced. The input parameters considered were extrusion driving wheel speed, feed metal temperature, tool temperature, and factor of friction proceeding. Numerical simulations of a copper alloy (C18150) were carried out using DEFORM-3D to investigate the impact of the input variables on total load and effective stresses. A mathematical model based on response surface methodology (RSM) was developed for optimized results. The optimized parameters in terms of wheel extrusion velocities, feedstock temperatures, tool temperatures, and friction factors expressed. The ANOVA test was performed to assess the suitability and appropriateness of the model. Using RSM, the optimal load value of 408.167 kN and effective stress of 1241.0 MPa were achieved within the composite preference of 1.0. A load of 408.167 kN had been obtained if the velocity of the wheel, temperatures of feedstock, tool temperatures, and factors of friction are 4 rpm, 500°C, 400°C, and 0.85, respectively. The minimum effective stress of 1241.0 MPa is induced in the feedstock due to the CE process if the velocity of the wheel, temperature of the feedstock, die temperature, and frictional factor were 4 rpm, 500°C, 400°C, and 0.95, respectively.
Data from Activation of the cGAS/STING Axis in Genome-Damaged Hematopoietic Cells Does Not Impact Blood Cell Formation or Leukemogenesis
Authors: Dressel Nicole , Natusch Loreen , Munz Clara M. , Costas Ramon Santiago , Morcos Mina N.F. , Loff Anja , Hiller Björn , Haase Christa , Schulze Livia , Müller Patrick , Lesche Mathias , Dahl Andreas , Luksch Hella , Rösen-Wolff Angela , Roers Axel , Behrendt Rayk , Gerbaulet Alexander
Published: September 2023

Abstract
Genome damage is a main driver of malignant transformation, but it also induces aberrant inflammation via the cGAS/STING DNA-sensing pathway. Activation of cGAS/STING can trigger cell death and senescence, thereby potentially eliminating genome-damaged cells and preventing against malignant transformation. Here, we report that defective ribonucleotide excision repair (RER) in the hematopoietic system caused genome instability with concomitant activation of the cGAS/STING axis and compromised hematopoietic stem cell function, ultimately resulting in leukemogenesis. Additional inactivation of cGAS, STING, or type I IFN signaling, however, had no detectable effect on blood cell generation and leukemia development in RER-deficient hematopoietic cells. In wild-type mice, hematopoiesis under steady-state conditions and in response to genome damage was not affected by loss of cGAS. Together, these data challenge a role of the cGAS/STING pathway in protecting the hematopoietic system against DNA damage and leukemic transformation.
Significance:
Loss of cGAS/STING signaling does not impact DNA damage–driven leukemogenesis or alter steady-state, perturbed or malignant hematopoiesis, indicating that the cGAS/STING axis is not a crucial antioncogenic mechanism in the hematopoietic system.

See related commentary by Zierhut, p. 2807
Data from CD36 Drives Metastasis and Relapse in Acute Myeloid Leukemia
Authors: Farge Thomas , Nakhle Jean , Lagarde Damien , Cognet Guillaume , Polley Nathaniel , Castellano Rémy , Nicolau Marie-Laure , Bosc Claudie , Sabatier Marie , Sahal Ambrine , Saland Estelle , Jeanson Yannick , Guiraud Nathan , Boet Emeline , Bergoglio Camille , Gotanègre Mathilde , Mouchel Pierre-Luc , Stuani Lucille , Larrue Clément , Sallese Marie , De Mas Véronique , Moro Cedric , Dray Cédric , Collette Yves , Raymond-Letron Isabelle , Ader Isabelle , Récher Christian , Sarry Jean-Emmanuel , Cabon Florence , Vergez François , Carrière Audrey
Published: September 2023

Abstract
Identifying mechanisms underlying relapse is a major clinical issue for effective cancer treatment. The emerging understanding of the importance of metastasis in hematologic malignancies suggests that it could also play a role in drug resistance and relapse in acute myeloid leukemia (AML). In a cohort of 1,273 AML patients, we uncovered that the multifunctional scavenger receptor CD36 was positively associated with extramedullary dissemination of leukemic blasts, increased risk of relapse after intensive chemotherapy, and reduced event-free and overall survival. CD36 was dispensable for lipid uptake but fostered blast migration through its binding with thrombospondin-1. CD36-expressing blasts, which were largely enriched after chemotherapy, exhibited a senescent-like phenotype while maintaining their migratory ability. In xenograft mouse models, CD36 inhibition reduced metastasis of blasts and prolonged survival of chemotherapy-treated mice. These results pave the way for the development of CD36 as an independent marker of poor prognosis in AML patients and a promising actionable target to improve the outcome of patients.
Significance:
CD36 promotes blast migration and extramedullary disease in acute myeloid leukemia and represents a critical target that can be exploited for clinical prognosis and patient treatment.
Data from SENP1 Decreases RNF168 Phase Separation to Promote DNA Damage Repair and Drug Resistance in Colon Cancer
Authors: Wei Min , Huang Xinping , Liao Liming , Tian Yonglu , Zheng Xiaofeng
Published: September 2023

Abstract
The DNA damage response (DDR) is essential for the maintenance of genomic stability. Protein posttranslational modifications play pivotal roles in regulating the DDR process. Here, we found that SUMOylated RNF168 undergoes liquid–liquid phase separation (LLPS), which restricts the recruitment of RNF168 to DNA damage sites, reduces RNF168-catalyzed H2A ubiquitination, restrains 53BP1 in nuclear condensates, and ultimately impairs nonhomologous DNA end joining repair efficiency. Sentrin/SUMO-specific protease 1 (SENP1) was identified as a specific deSUMOylase of RNF168, and it was highly expressed in colorectal adenocarcinoma. In response to DNA damage, SENP1 decreased RNF168 SUMOylation and prevented RNF168 from forming nuclear condensates, thus promoting damage repair efficiency and cancer cell resistance to DNA damaging agents. Moreover, high SENP1 expression correlated with poor prognosis in patients with cancer, and SENP1 depletion sensitized cancer cells to chemotherapy. In summary, these findings reveal DDR is suppressed by SUMOylation-induced LLPS of RNF168 and suggest that SENP1 is a potential target for cancer therapy.
Significance:
Sentrin/SUMO-specific protease 1 decreases RNF168 SUMOylation and liquid–liquid phase separation to promote DNA damage repair, safeguarding genomic integrity and driving chemotherapy resistance.
Data from Nanoparticle-Based Combination Therapy Enhances Fulvestrant Efficacy and Overcomes Tumor Resistance in ER-Positive Breast Cancer
Authors: Li Bozhao , Qi Feilong , Zhu Fei , Lu Zefang , Wang Meiqi , Chu Tianjiao , Wu Suying , Wei Jingyan , Song Zhenchuan , Sukumar Saraswati , Zhang Cheng , Xu Jiangfei , Li Suping , Nie Guangjun
Published: September 2023

Abstract
Nanoparticles (NP) spanning diverse materials and properties have the potential to encapsulate and to protect a wide range of therapeutic cargos to increase bioavailability, to prevent undesired degradation, and to mitigate toxicity. Fulvestrant, a selective estrogen receptor degrader, is commonly used for treating patients with estrogen receptor (ER)–positive breast cancer, but its broad and continual application is limited by poor solubility, invasive muscle administration, and drug resistance. Here, we developed an active targeting motif-modified, intravenously injectable, hydrophilic NP that encapsulates fulvestrant to facilitate its delivery via the bloodstream to tumors, improving bioavailability and systemic tolerability. In addition, the NP was coloaded with abemaciclib, an inhibitor of cyclin-dependent kinases 4 and 6 (CDK4/6), to prevent the development of drug resistance associated with long-term fulvestrant treatment. Targeting peptide modifications on the NP surface assisted in the site-specific release of the drugs to ensure specific toxicity in the tumor tissues and to spare normal tissue. The NP formulation (PPFA-cRGD) exhibited efficient tumor cell killing in both in vitro organoid models and in vivo orthotopic ER-positive breast cancer models without apparent adverse effects, as verified in mouse and Bama miniature pig models. This NP-based therapeutic provides an opportunity for continual and extensive clinical application of fulvestrant, thus indicating its promise as a treatment option for patients with ER-positive breast cancer.
Significance:
A smart nanomedicine encapsulating fulvestrant to improve its half-life, bioavailability, and tumor-targeting and coloaded with CDK4/6 inhibitor abemaciclib to block resistance is a safe and effective therapy for ER-positive breast cancer.
Table S3 from Using DEPendency of Association on the Number of Top Hits (DEPTH) as a Complementary Tool to Identify Novel Colorectal Cancer Susceptibility Loci
Authors: Lai John , Wong Chi Kuen , Schmidt Daniel F. , Kapuscinski Miroslaw K. , Alpen Karen , MacInnis Robert J. , Buchanan Daniel D. , Win Aung K. , Figueiredo Jane C. , Chan Andrew T. , Harrison Tabitha A. , Hoffmeister Michael , White Emily , Le Marchand Loic , Pai Rish K. , Peters Ulrike , Hopper John L. , Jenkins Mark A. , Makalic Enes
Published: September 2023

Supplementary Table S3 shows the number of SNPs filtered out at each QC stage (according to Supplementary Table S2)
Table S10 from Using DEPendency of Association on the Number of Top Hits (DEPTH) as a Complementary Tool to Identify Novel Colorectal Cancer Susceptibility Loci
Authors: Lai John , Wong Chi Kuen , Schmidt Daniel F. , Kapuscinski Miroslaw K. , Alpen Karen , MacInnis Robert J. , Buchanan Daniel D. , Win Aung K. , Figueiredo Jane C. , Chan Andrew T. , Harrison Tabitha A. , Hoffmeister Michael , White Emily , Le Marchand Loic , Pai Rish K. , Peters Ulrike , Hopper John L. , Jenkins Mark A. , Makalic Enes
Published: September 2023

Supplementary Table S10 shows the logistic regression summary statistics for both the CCFR and GECCO datasets.
Supplementary Table S5 from Development of a Breast Cancer Risk Prediction Model Incorporating Polygenic Risk Scores and Nongenetic Risk Factors for Korean Women
Authors: Choi Jihye , Ha Tae-Woong , Choi Hye-Mi , Lee Han-Byoel , Shin Hee-Chul , Chung Woosung , Han Wonshik
Published: September 2023

Comparison of AUC and E/O ratio between NGRF, PRS and PRS+NGRF models
Supplementary Table S3 from Development of a Breast Cancer Risk Prediction Model Incorporating Polygenic Risk Scores and Nongenetic Risk Factors for Korean Women
Authors: Choi Jihye , Ha Tae-Woong , Choi Hye-Mi , Lee Han-Byoel , Shin Hee-Chul , Chung Woosung , Han Wonshik
Published: September 2023

Relative risk and population distribution of NGRFs for breast cancer in Korean women
Supplementary Table S1 from Development of a Breast Cancer Risk Prediction Model Incorporating Polygenic Risk Scores and Nongenetic Risk Factors for Korean Women
Authors: Choi Jihye , Ha Tae-Woong , Choi Hye-Mi , Lee Han-Byoel , Shin Hee-Chul , Chung Woosung , Han Wonshik
Published: September 2023

Beta weights and number of breast cancer associated SNPs used to construct single PRS
Supplementary Figure S4 from Development of a Breast Cancer Risk Prediction Model Incorporating Polygenic Risk Scores and Nongenetic Risk Factors for Korean Women
Authors: Choi Jihye , Ha Tae-Woong , Choi Hye-Mi , Lee Han-Byoel , Shin Hee-Chul , Chung Woosung , Han Wonshik
Published: September 2023

The absolute risk was estimated using different combinations of PRS and NGRF risk levels. PRS was classified into three risk groups according to percentile distributions (0-20%: low, 20-80%: mid, 80-100%: high). NGRF score was classified into two groups divided at median (0-50%: low, 50-100%: high). The dotted lines represent the average risks. (A) Lifetime absolute risk (B) 5-year absolute risk
Supplementary Figure S3 from Development of a Breast Cancer Risk Prediction Model Incorporating Polygenic Risk Scores and Nongenetic Risk Factors for Korean Women
Authors: Choi Jihye , Ha Tae-Woong , Choi Hye-Mi , Lee Han-Byoel , Shin Hee-Chul , Chung Woosung , Han Wonshik
Published: September 2023

Estimation of absolute risk of breast cancer by seven percentiles for women at different ages estimated using data from HEXA 1st. The absolute risk of developing breast cancer predicted by the multiple PRS model (PRS38_ASN+PRS190_EB). The dotted lines represent the average risks. (A) Lifetime absolute risk (B) 5-year absolute risk
Table S5 from Predicted Proteome Association Studies of Breast, Prostate, Ovarian, and Endometrial Cancers Implicate Plasma Protein Regulation in Cancer Susceptibility
Authors: Gregga Isabelle , Pharoah Paul D. P. , Gayther Simon A. , Manichaikul Ani , Im Hae Kyung , Kar Siddhartha P. , Schildkraut Joellen M. , Wheeler Heather E.
Published: September 2023

Table S5. PhenomeXcan TWAS results for 8 genes that had cancer associations.
Table S4 from Predicted Proteome Association Studies of Breast, Prostate, Ovarian, and Endometrial Cancers Implicate Plasma Protein Regulation in Cancer Susceptibility
Authors: Gregga Isabelle , Pharoah Paul D. P. , Gayther Simon A. , Manichaikul Ani , Im Hae Kyung , Kar Siddhartha P. , Schildkraut Joellen M. , Wheeler Heather E.
Published: September 2023

Table S4. PWAS meta-FDR<0.05 proteins with endometrial cancer associations.
Table S1 from Predicted Proteome Association Studies of Breast, Prostate, Ovarian, and Endometrial Cancers Implicate Plasma Protein Regulation in Cancer Susceptibility
Authors: Gregga Isabelle , Pharoah Paul D. P. , Gayther Simon A. , Manichaikul Ani , Im Hae Kyung , Kar Siddhartha P. , Schildkraut Joellen M. , Wheeler Heather E.
Published: September 2023

Table S1. Summary statistics of 7 cancer types tested with ARIC plasma proteome models, FDR<0.05, with single- and multi-variant COLOC results.
Figure 4 from Characteristics of Cancer Epidemiology Studies That Employ Metabolomics: A Scoping Review
Authors: Yu Catherine T. , Farhat Zeinab , Livinski Alicia A. , Loftfield Erikka , Zanetti Krista A.
Published: September 2023

Pie chart shows the breakdown of metabolomics-specific aims of included metabolomic epidemiology studies of cancer. (a) Cancer risk estimation using incident cases; (b) cancer risk estimation using prevalent cases; (c) biomarker of exposure and cancer risk estimation using incident cases; (d) biomarker of exposure and cancer risk estimation using prevalent cases; (e) biomarkers of disease diagnosis; (f) biomarkers of survival; (g) biomarkers of disease diagnosis and survival; (h) disease differentiation: cases vs. controls; (i) disease differentiation: tumor vs. non-tumor tissue; (j) risk of recurrence or death among cancer survivors; (k) cancer progression/natural history; (l) association study: prognosis/recurrence; (m) descriptive study: progression/survival.
Supplementary Table 4 from Intake of Proton-Pump Inhibitors and Gastric Cancer within the Stomach Cancer Pooling (StoP) Project
Authors: Sassano Michele , Mariani Marco , Pelucchi Claudio , Lunet Nuno , Morais Samantha , Martín Vicente , Moreno Victor , Curado Maria Paula , Dias-Neto Emmanuel , Leja Marcis , Gašenko Evita , La Vecchia Carlo , Boccia Stefania , Pastorino Roberta
Published: September 2023

Supplementary Table 4: Pooled adjusted odds ratios (ORs) and corresponding 95% confidence intervals (CIs) for the association between intake of proton-pump inhibitors and gastric cancer from the leave-one-out meta-analysis.
Supplementary Table 6 from Relationship between ABO Blood Group Alleles and Pancreatic Cancer Is Modulated by Secretor (FUT2) Genotype, but Not Lewis Antigen (FUT3) Genotype
Authors: Kim Jihye , Yuan Chen , Amundadottir Laufey T. , Wolpin Brian M. , Klein Alison P. , Risch Harvey A. , Kraft Peter
Published: September 2023

Table S6 presents joint analysis results of secretor status and Lewis antigen in the relationship with pancreatic cancer risk, stratified by O and non-O blood groups.
Supplementary Table 1 from Intake of Proton-Pump Inhibitors and Gastric Cancer within the Stomach Cancer Pooling (StoP) Project
Authors: Sassano Michele , Mariani Marco , Pelucchi Claudio , Lunet Nuno , Morais Samantha , Martín Vicente , Moreno Victor , Curado Maria Paula , Dias-Neto Emmanuel , Leja Marcis , Gašenko Evita , La Vecchia Carlo , Boccia Stefania , Pastorino Roberta
Published: September 2023

Supplementary Table 1: Main characteristics of the studies included in the analysis.
Supplementary Table 3 from Relationship between ABO Blood Group Alleles and Pancreatic Cancer Is Modulated by Secretor (FUT2) Genotype, but Not Lewis Antigen (FUT3) Genotype
Authors: Kim Jihye , Yuan Chen , Amundadottir Laufey T. , Wolpin Brian M. , Klein Alison P. , Risch Harvey A. , Kraft Peter
Published: September 2023

Table S3 presents adjusted associations of ABO blood group alleles and pancreatic cancer risk, stratified by secretor status and cohorts, and interactions between ABO blood group alleles and secretor status.
Supplementary Table 1 from Relationship between ABO Blood Group Alleles and Pancreatic Cancer Is Modulated by Secretor (FUT2) Genotype, but Not Lewis Antigen (FUT3) Genotype
Authors: Kim Jihye , Yuan Chen , Amundadottir Laufey T. , Wolpin Brian M. , Klein Alison P. , Risch Harvey A. , Kraft Peter
Published: September 2023

Table S1 presents the haplotype and genotype frequencies of ABO blood alleles, secretor status, and Lewis antigen groups.
Supplementary Table S2 from HSA Adductomics Reveals Sex Differences in NHL Incidence and Possible Involvement of Microbial Translocation
Authors: Grigoryan Hasmik , Imani Partow , Sacerdote Carlotta , Masala Giovanna , Grioni Sara , Tumino Rosario , Chiodini Paolo , Dudoit Sandrine , Vineis Paolo , Rappaport Stephen M.
Published: September 2023

Supplementary Table S2: Cys34 and Lys525 adducts detected
Supplementary Table S1 from HSA Adductomics Reveals Sex Differences in NHL Incidence and Possible Involvement of Microbial Translocation
Authors: Grigoryan Hasmik , Imani Partow , Sacerdote Carlotta , Masala Giovanna , Grioni Sara , Tumino Rosario , Chiodini Paolo , Dudoit Sandrine , Vineis Paolo , Rappaport Stephen M.
Published: September 2023

Supplementary Table S1: Cancer types and morphology codes
Supplementary Table S3 from Genetic Susceptibility to Nonalcoholic Fatty Liver Disease and Risk for Pancreatic Cancer: Mendelian Randomization
Authors: King Sontoria D. , Veliginti Swathi , Brouwers Martijn C.G.J. , Ren Zhewen , Zheng Wei , Setiawan Veronica W. , Wilkens Lynne R. , Shu Xiao-Ou , Arslan Alan A. , Beane Freeman Laura E. , Bracci Paige M. , Canzian Federico , Du Mengmeng , Gallinger Steven J. , Giles Graham G. , Goodman Phyllis J. , Haiman Christopher A. , Kogevinas Manolis , Kooperberg Charles , LeMarchand Loic , Neale Rachel E. , Visvanathan Kala , White Emily , Albanes Demetrius , Andreotti Gabriella , Babic Ana , Berndt Sonja I. , Brais Lauren K. , Brennan Paul , Buring Julie E. , Rabe Kari G. , Bamlet William R. , Chanock Stephen J. , Fuchs Charles S. , Gaziano J. Michael , Giovannucci Edward L. , Hackert Thilo , Hassan Manal M. , Katzke Verena , Kurtz Robert C. , Lee I.-Min , Malats Núria , Murphy Neil , Oberg Ann L. , Orlow Irene , Porta Miquel , Real Francisco X. , Rothman Nathaniel , Sesso Howard D. , Silverman Debra T. , Thompson Ian M. , Wactawski-Wende Jean , Wang Xiaoliang , Wentzensen Nicolas , Yu Herbert , Zeleniuch-Jacquotte Anne , Yu Kai , Wolpin Brian M. , Duell Eric J. , Li Donghui , Hung Rayjean J. , Perdomo Sandra , McCullough Marjorie L. , Freedman Neal D. , Patel Alpa V. , Peters Ulrike , Riboli Elio , Sund Malin , Tjønneland Anne , Zhong Jun , Van Den Eeden Stephen K. , Kraft Peter , Risch Harvey A. , Amundadottir Laufey T. , Klein Alison P. , Stolzenberg-Solomon Rachael Z. , Antwi Samuel O.
Published: September 2023

Supplementary Table S3 shows results of univariate analysis for 36 biopsy-confirmed nonalcoholic fatty liver disease SNPs in the PanScan sample
Supplemental Table 6 from Elevated EVL Methylation Level in the Normal Colon Mucosa Is a Potential Risk Biomarker for Developing Recurrent Adenomas
Authors: Yu Ming , Carter Kelly T. , Baker Kelsey K. , Redman Mary W. , Wang Ting , Vickers Kathy , Li Christopher I. , Cohen Stacey A. , Krane Mukta , Ose Jennifer , Gigic Biljana , Figueiredo Jane C. , Toriola Adetunji T. , Siegel Erin M. , Shibata David , Schneider Martin , Ulrich Cornelia M. , Dzubinski Lynda A. , Schoen Robert E. , Grady William M.
Published: September 2023

Supplemental Table 6: Summary statistics for methylated EVL measurements in Comparison Set 2
Supplemental Table 2 from Elevated EVL Methylation Level in the Normal Colon Mucosa Is a Potential Risk Biomarker for Developing Recurrent Adenomas
Authors: Yu Ming , Carter Kelly T. , Baker Kelsey K. , Redman Mary W. , Wang Ting , Vickers Kathy , Li Christopher I. , Cohen Stacey A. , Krane Mukta , Ose Jennifer , Gigic Biljana , Figueiredo Jane C. , Toriola Adetunji T. , Siegel Erin M. , Shibata David , Schneider Martin , Ulrich Cornelia M. , Dzubinski Lynda A. , Schoen Robert E. , Grady William M.
Published: September 2023

Supplemental Table 2: Summary patient characteristics for Comparison Set 1
Supplemental Table 1 from Elevated EVL Methylation Level in the Normal Colon Mucosa Is a Potential Risk Biomarker for Developing Recurrent Adenomas
Authors: Yu Ming , Carter Kelly T. , Baker Kelsey K. , Redman Mary W. , Wang Ting , Vickers Kathy , Li Christopher I. , Cohen Stacey A. , Krane Mukta , Ose Jennifer , Gigic Biljana , Figueiredo Jane C. , Toriola Adetunji T. , Siegel Erin M. , Shibata David , Schneider Martin , Ulrich Cornelia M. , Dzubinski Lynda A. , Schoen Robert E. , Grady William M.
Published: September 2023

Supplemental Table 1: Primer/probe sequences used in the duplex mEVL assay
Supplementary Table 3 from Sex-specific Associations between Body Mass Index and Thyroid Cancer Incidence among Korean Adults
Authors: Kim Kyoung-Nam , Kim Kyungsik , Lee Sangjun , Park Sue K.
Published: September 2023

Supplementary Table 3 shows the associations between body mass index (BMI) and thyroid cancer incidence in the Korean Multi-center Cancer Cohort (KMCC) using the Western BMI cutoff
Supplementary Table 1 from Association between Sleep Duration and Colorectal Adenomas: Findings from a Case–Control Study in Vietnam
Authors: Tran Chi Thi-Du , Paragomi Pedram , Tran Mo Thi , Nguyen Mai Vu-Tuyet , Tuong Thuy Thi-Van , Tran Quang Hong , Le Linh Cu , Pham Huong Thi-Thu , Ha Hien Thi-Thu , Bui Nam Chi , Vu Hien Huy , Ta Phuong Que , Shrubsole Martha J. , Cai Qiuyin , Ye Fei , Le Song Huu , Vu Khien Van , Tran Huong Thi-Thanh , Tran Thuan Van , Boffetta Paolo , Shu Xiao-Ou , Luu Hung N.
Published: September 2023

This supplementary table describes the distributions of baseline characteristics among study participants by cases versus controls
Supplementary Table S1 from Variations in Genes Encoding Human Papillomavirus Binding Receptors and Susceptibility to Cervical Precancer
Authors: Mukherjee Amrita , Ye Yuanfan , Wiener Howard W. , Kuniholm Mark H. , Minkoff Howard , Michel Kate , Palefsky Joel , D'Souza Gypsyamber , Rahangdale Lisa , Butler Kenneth R. , Kempf Mirjam-Colette , Sudenga Staci L. , Aouizerat Bradley E. , Ojesina Akinyemi I. , Shrestha Sadeep
Published: September 2023

Supplementary Table S1 lists all genetic variants (SNPs) in the candidate genese associated with pre-cancer.
Supplementary Table 3 from Hospitalizations and Cost of Inpatient Care for Physical Diseases in Survivors of Childhood Cancer in Western Australia: A Longitudinal Matched Cohort Study
Authors: Abdalla Tasnim , Walwyn Thomas , White Daniel , Choong Catherine S. , Bulsara Max , Preen David B. , Ohan Jeneva L.
Published: September 2023

Adjusted annual mean costs of privately funded hospitalisations per individual, by all-cause and cause-specific physical diseases.
Supplementary Table 2 from Hospitalizations and Cost of Inpatient Care for Physical Diseases in Survivors of Childhood Cancer in Western Australia: A Longitudinal Matched Cohort Study
Authors: Abdalla Tasnim , Walwyn Thomas , White Daniel , Choong Catherine S. , Bulsara Max , Preen David B. , Ohan Jeneva L.
Published: September 2023

Multivariable adjusted hazard ratios for all-cause and cause-specific hospitalisations, major cancer diagnostic group.
Supplementary Table 1 from Hospitalizations and Cost of Inpatient Care for Physical Diseases in Survivors of Childhood Cancer in Western Australia: A Longitudinal Matched Cohort Study
Authors: Abdalla Tasnim , Walwyn Thomas , White Daniel , Choong Catherine S. , Bulsara Max , Preen David B. , Ohan Jeneva L.
Published: September 2023

Major diagnostic groups of physical-health diseases based on the International Classification of Diseases (ICD), 9th (Clinical modification) and 10th (Australian Modification) revisions.