85 Works

Benchmark study of feature selection strategies for multi-omics data

Yingxia Li, Ulrich Mansmann, Shangming Du & Roman Hornung
Abstract Background In the last few years, multi-omics data, that is, datasets containing different types of high-dimensional molecular variables for the same samples, have become increasingly available. To date, several comparison studies focused on feature selection methods for omics data, but to our knowledge, none compared these methods for the special case of multi-omics data. Given that these data have specific structures that differentiate them from single-omics data, it is unclear whether different feature selection...

Augmented Hill-Climb increases reinforcement learning efficiency for language-based de novo molecule generation

Morgan Thomas, Noel M. O’Boyle, Andreas Bender & Chris de Graaf
Abstract A plethora of AI-based techniques now exists to conduct de novo molecule generation that can devise molecules conditioned towards a particular endpoint in the context of drug design. One popular approach is using reinforcement learning to update a recurrent neural network or language-based de novo molecule generator. However, reinforcement learning can be inefficient, sometimes requiring up to 105 molecules to be sampled to optimize more complex objectives, which poses a limitation when using computationally...

Joint analysis of PK and immunogenicity outcomes using factorization model − a powerful approach for PK similarity study

Halimu N. Haliduola, Fausto Berti, Heimo Stroissnig, Eric Guenzi, Hendrik Otto, Abid Sattar & Ulrich Mansmann
Abstract Biological products, whether they are innovator products or biosimilars, can incite an immunogenic response ensuing in the development of anti-drug antibodies (ADA). The presence of ADA’s often affects the drug clearance, resulting in an increase in the variability of pharmacokinetic (PK) analysis and challenges in the design and analysis of PK similarity studies. Immunogenic response is a complex process which may be manifested by product and non-product-related factors. Potential imbalances in non-product-related factors between...

Botulinum toxin treatment for bielschowsky acquired comitant esotropia in adults

Likun Ai, Xiaoli Chen, Ruilin Guo, Jing Li, Jinghui Wang, Yi Feng, Yiqin Guo & Jianan Wang
Abstract Background Many researchers have noticed that there is an increasing trend of Bielschowsky acquired comitant esotropia (ACE) in recent years related to excessive near work, but the exact pathogenesis and treatment methods have not been reported yet. Therefore, we aimed to characterize the clinical features of this ACE in adults and to evaluate the efficacy of botulinum toxin (BTX) injections in these patients. Methods This was a prospective consecutive case series of 47 patients...

Developing a competence framework for gerontological nursing in China: a two-phase research design including a needs analysis and verification study

Bea L. Dijkman, Marina Hirjaba, Wenwen Wang, Marjo Palovaara, Marjolein Annen, Merle Varik, Ying’ai Cui, Jing Li, Cornelia van Slochteren, Wang Jihong, Chen Feiteng, Yu Luo, Yudong Chen & Wolter Paans
Abstract Background China faces a serious shortage of competent nurses who can address the healthcare needs of older people in an ageing society. Chinese higher education institutes face serious challenges when it comes to developing new curricula that are capable of educating sufficient numbers of competent gerontological nurses. Therefore, the aim of this research study was to identify and verify competencies for gerontological nurses in China that are needed to provide nursing care for the...

Network reconstruction for trans acting genetic loci using multi-omics data and prior information

Johann S. Hawe, Ashis Saha, Melanie Waldenberger, Sonja Kunze, Simone Wahl, Martina Müller-Nurasyid, Holger Prokisch, Harald Grallert, Christian Herder, Annette Peters, Konstantin Strauch, Fabian J. Theis, Christian Gieger, John Chambers, Alexis Battle & Matthias Heinig
Abstract Background Molecular measurements of the genome, the transcriptome, and the epigenome, often termed multi-omics data, provide an in-depth view on biological systems and their integration is crucial for gaining insights in complex regulatory processes. These data can be used to explain disease related genetic variants by linking them to intermediate molecular traits (quantitative trait loci, QTL). Molecular networks regulating cellular processes leave footprints in QTL results as so-called trans-QTL hotspots. Reconstructing these networks is...

Vari-focal liquid microlens array using electrically responsive fluid actuated by ring array patterned electrode

Miao Xu, Yating Liu, Senhao Li, Jing Li, Lyudi Zhang & Hongbo Lu
A transparent fluid dibutyl adipate (DBA) is suitable for fabricating the adaptive lens due to its unique deformation under a direct current (DC) electric field. In this report, a DBA liquid microlens array (LMA) with tunable focal length is demonstrated. A hydrophobic layer deposited in the ring-array patterns on the electrode induced the formation of the DBA liquid microdroplets array self-assembly. The electronegative DBA liquid tends to move to the anode at a DC voltage....

Genome-wide identification and characterization of lncRNAs in sunflower endosperm

Shuai Yu, Zhichao Zhang, Jing Li, Yanbin Zhu, Yanzhe Yin, Xiaoyu Zhang, Yuxin Dai, Ao Zhang, Cong Li, Yanshu Zhu, Jinjuan Fan, Yanye Ruan & Xiaomei Dong
Abstract Background Long non-coding RNAs (lncRNAs), as important regulators, play important roles in plant growth and development. The expression and epigenetic regulation of lncRNAs remain uncharacterized generally in plant seeds, especially in the transient endosperm of the dicotyledons. Results In this study, we identified 11,840 candidate lncRNAs in 12 day-after-pollination sunflower endosperm by analyzing RNA-seq data. These lncRNAs were evenly distributed in all chromosomes and had specific features that were distinct from mRNAs including tissue-specificity...

Protein intake and outcome of critically ill patients: analysis of a large international database using piece-wise exponential additive mixed models

Wolfgang H. Hartl, Philipp Kopper, Andreas Bender, Fabian Scheipl, Andrew G. Day, Gunnar Elke & Helmut Küchenhoff
Abstract Background Proteins are an essential part of medical nutrition therapy in critically ill patients. Guidelines almost universally recommend a high protein intake without robust evidence supporting its use. Methods Using a large international database, we modelled associations between the hazard rate of in-hospital death and live hospital discharge (competing risks) and three categories of protein intake (low: < 0.8 g/kg per day, standard: 0.8–1.2 g/kg per day, high: > 1.2 g/kg per day) during...

Road infrastructures, spatial surroundings, and the demand and route choices for cycling: Evidence from a GPS-based mode detection study from Oslo, Norway

Tineke de Jong, Lars Böcker & Christian Weber
To achieve a higher cycling uptake, it is essential for planners to know what kind of cycling infrastructure to plan and where, that is, through which types of urban environments. In this paper, we provide a deeper understanding of cycling demand and cycling route choices and infer insights into cyclists’ latent preferences and dispreferences concerning both infrastructure attributes and the spatial characteristics of route surroundings. Hereto, this study has collected, map-matched, geovisualized, and examined a...

Two-photon pumped exciton-polariton condensation

Nadav Landau, Dmitry Panna, Sebastian Brodbeck, Christian Schneider, Sven Höfling & Alex Hayat
Two-photon absorption (TPA) allows accessing “dark” states of matter otherwise inaccessible to light, which serve as important building blocks for quantum information processing. In a semiconductor microcavity, TPA driven condensation of strongly-coupled light-matter exciton-polaritons can enable new solid-state quantum simulations of “dark” state-condensate interactions, and was predicted to stimulate THz emission. Here, we report the first observation of two-photon pumped polariton condensation, demonstrated by angle-resolved photoluminescence in a GaAs-based microcavity. TPA is evidenced in the...

EVI1 expression in early-stage breast cancer patients treated with neoadjuvant chemotherapy

Jonas Leichsenring, Valentina Vladimirova, Christine Solbach, Thomas Karn, Beyhan Ataseven, Bruno Valentin Sinn, Jana Barinoff, Volkmar Müller, Jens-Uwe Blohmer, Christian Schem, Knut Engels, Frederik Marmé, Annette Fisseler-Eckhoff, Peter A. Fasching, Elmar Stickeler, Marion van Mackelenbergh, Carsten Denkert, Albrecht Stenzinger, Sibylle Loibl & Stefan Gröschel
Abstract Background Overexpression of the EVI1 (ecotropic viral integration site 1) oncogene has recently been implicated as a prognostic factor in breast cancer (BC), particularly in triple-negative BC (TNBC). In this study we aimed to investigate frequency and clinical relevance of EVI1 expression in newly diagnosed BC treated with neoadjuvant chemotherapy. Methods EVI1 expression was determined by immunohistochemistry using H-score as a cumulative measurement of protein expression in pretherapeutic biopsies of BC patients treated with...

Botulinum toxin treatment for bielschowsky acquired commitant esotropia in adults

Likun Ai, Xiaoli Chen, Ruilin Guo, Jing Li, Jinghui Wang, Yi Feng, Yiqin Guo & Jianan Wang
Abstract Background Many researchers have noticed that there is an increasing trend of Bielschowsky acquired comitant esotropia (ACE) in recent years related to excessive near work, but the exact pathogenesis and treatment methods have not been reported yet. Therefore, we aimed to characterize the clinical features of this ACE in adults and to evaluate the efficacy of botulinum toxin (BTX) injections in these patients. Methods This was a prospective consecutive case series of 47 patients...

Botulinum toxin treatment for bielschowsky acquired comitant esotropia in adults

Likun Ai, Xiaoli Chen, Ruilin Guo, Jing Li, Jinghui Wang, Yi Feng, Yiqin Guo & Jianan Wang
Abstract Background Many researchers have noticed that there is an increasing trend of Bielschowsky acquired comitant esotropia (ACE) in recent years related to excessive near work, but the exact pathogenesis and treatment methods have not been reported yet. Therefore, we aimed to characterize the clinical features of this ACE in adults and to evaluate the efficacy of botulinum toxin (BTX) injections in these patients. Methods This was a prospective consecutive case series of 47 patients...

Protein intake and outcome of critically ill patients: analysis of a large international database using piece-wise exponential additive mixed models

Wolfgang H. Hartl, Philipp Kopper, Andreas Bender, Fabian Scheipl, Andrew G. Day, Gunnar Elke & Helmut Küchenhoff
Abstract Background Proteins are an essential part of medical nutrition therapy in critically ill patients. Guidelines almost universally recommend a high protein intake without robust evidence supporting its use. Methods Using a large international database, we modelled associations between the hazard rate of in-hospital death and live hospital discharge (competing risks) and three categories of protein intake (low: < 0.8 g/kg per day, standard: 0.8–1.2 g/kg per day, high: > 1.2 g/kg per day) during...

Early remission in multiple sclerosis is linked to altered coherence of the Cerebellar Network

Marlene Tahedl, Seth M. Levine, Robert Weissert, Zacharias Kohl, De-Hyung Lee, Ralf A. Linker & Jens V. Schwarzbach
Abstract Background The development of permanent disability in multiple sclerosis (MS) is highly variable among patients, and the exact mechanisms that contribute to this disability remain unknown. Methods Following the idea that the brain has intrinsic network organization, we investigated changes of functional networks in MS patients to identify possible links between network reorganization and remission from clinical episodes in MS. Eighteen relapsing–remitting MS patients (RRMS) in their first clinical manifestation underwent resting-state functional MRI...

Outcomes and risks in palliative pancreatic surgery: an analysis of the German StuDoQ|Pancreas registry

Felix O. Hofmann, Rainer C. Miksch, Maximilian Weniger, Tobias Keck, Matthias Anthuber, Helmut Witzigmann, Natascha C. Nuessler, Christoph Reissfelder, Jörg Köninger, Michael Ghadimi, Detlef K. Bartsch, Werner Hartwig, Martin K. Angele, Jan G. D’Haese & Jens Werner
Abstract Background Non-resectability is common in patients with pancreatic ductal adenocarcinoma (PDAC) due to local invasion or distant metastases. Then, biliary or gastroenteric bypasses or both are often established despite associated morbidity and mortality. The current study explores outcomes after palliative bypass surgery in patients with non-resectable PDAC. Methods From the prospectively maintained German StuDoQ|Pancreas registry, all patients with histopathologically confirmed PDAC who underwent non-resective pancreatic surgery between 2013 and 2018 were retrospectively identified, and...

Fecal microbiota transplantation combined with ruxolitinib as a salvage treatment for intestinal steroid-refractory acute GVHD

Yin Liu, Ye Zhao, Jiaqian Qi, Xiao Ma, Xiaofei Qi, Depei Wu & Yang Xu
Abstract Acute graft-versus-host disease (aGVHD), especially intestinal aGVHD, is one of the most severe complications after allogeneic hematopoietic stem cell transplantation (HSCT). Fecal microbiota transplantation (FMT) has been applied to the treatment of intestinal steroid-refractory aGVHD (SR-aGVHD). Ruxolitinib is the first drug recommended for SR-aGVHD. Here, we reported the outcome data from 21 patients who had received the combined treatment of FMT with ruxolitinib as a salvage treatment in intestinal SR-aGVHD after HSCT. The overall...

Bernstein Conference 2022 Abstracts

On the use of Earth Observation to support estimates of national greenhouse gas emissions and sinks for the Global stocktake process: lessons learned from ESA-CCI RECCAP2

Ana Bastos, Philippe Ciais, Stephen Sitch, Luiz E. O. C. Aragão, Frédéric Chevallier, Dominic Fawcett, Thais M. Rosan, Marielle Saunois, Dirk Günther, Lucia Perugini, Colas Robert, Zhu Deng, Julia Pongratz, Raphael Ganzenmüller, Richard Fuchs, Karina Winkler, Sönke Zaehle & Clément Albergel
Abstract The Global Stocktake (GST), implemented by the Paris Agreement, requires rapid developments in the capabilities to quantify annual greenhouse gas (GHG) emissions and removals consistently from the global to the national scale and improvements to national GHG inventories. In particular, new capabilities are needed for accurate attribution of sources and sinks and their trends to natural and anthropogenic processes. On the one hand, this is still a major challenge as national GHG inventories follow...

Benchmark study of feature selection strategies for multi-omics data

Yingxia Li, Ulrich Mansmann, Shangming Du & Roman Hornung
Abstract Background In the last few years, multi-omics data, that is, datasets containing different types of high-dimensional molecular variables for the same samples, have become increasingly available. To date, several comparison studies focused on feature selection methods for omics data, but to our knowledge, none compared these methods for the special case of multi-omics data. Given that these data have specific structures that differentiate them from single-omics data, it is unclear whether different feature selection...

Visinin-like protein 1 levels in blood and CSF as emerging markers for Alzheimer’s and other neurodegenerative diseases

Steffen Halbgebauer, Petra Steinacker, Daniel Riedel, Patrick Oeckl, Sarah Anderl-Straub, Jolina Lombardi, Christine A. F. von Arnim, Magdalena Nagl, Armin Giese, Albert C. Ludolph & Markus Otto
Abstract Background Visinin-like protein 1 (VILIP-1) belongs to the group of emerging biomarkers with the potential to support the early diagnosis of Alzheimer’s disease (AD). However, studies investigating the differential diagnostic potential in cerebrospinal fluid (CSF) are rare and are not available for blood. Methods We set up a novel, sensitive single molecule array (Simoa) assay for the detection of VILIP-1 in CSF and serum. In total, paired CSF and serum samples from 234 patients...

The global burden of cerebral small vessel disease in low- and middle-income countries: A systematic review and meta-analysis

Bonnie Yin Ka Lam, Yuan Cai, Rufus Akinyemi, Geert Jan Biessels, Hilde van den Brink, Christopher Chen, Chin Wai Cheung, King Ngai Chow, Henry Kwun Hang Chung, Marco Duering, Siu Ting Fu, Deborah Gustafson, Saima Hilal, Vincent Ming Ho Hui, Rajesh Kalaria, SangYun Kim, Maggie Li Man Lam, Frank Erik de Leeuw, Ami Sin Man Li, Hugh Stephen Markus, Anna Marseglia, Huijing Zheng, John O’Brien, Leonardo Pantoni, Perminder Singh Sachdev … & Vincent Chung Tong Mok
Background:Cerebral small vessel disease (cSVD) is a major cause of stroke and dementia. Previous studies on the prevalence of cSVD are mostly based on single geographically defined cohorts in high-income countries. Studies investigating the prevalence of cSVD in low- and middle-income countries (LMICs) are expanding but have not been systematically assessed.Aim:This study aims to systematically review the prevalence of cSVD in LMICs.Results:Articles were searched from the Ovid MEDLINE and EMBASE databases from 1 January 2000...

Two-photon pumped exciton-polariton condensation

Nadav Landau, Dmitry Panna, Sebastian Brodbeck, Christian Schneider, Sven Höfling & Alex Hayat
Two-photon absorption (TPA) allows accessing “dark” states of matter otherwise inaccessible to light, which serve as important building blocks for quantum information processing. In a semiconductor microcavity, TPA driven condensation of strongly-coupled light-matter exciton-polaritons can enable new solid-state quantum simulations of “dark” state-condensate interactions, and was predicted to stimulate THz emission. Here, we report the first observation of two-photon pumped polariton condensation, demonstrated by angle-resolved photoluminescence in a GaAs-based microcavity. TPA is evidenced in the...

Two-photon pumped exciton-polariton condensation

Nadav Landau, Dmitry Panna, Sebastian Brodbeck, Christian Schneider, Sven Höfling & Alex Hayat
Two-photon absorption (TPA) allows accessing “dark” states of matter otherwise inaccessible to light, which serve as important building blocks for quantum information processing. In a semiconductor microcavity, TPA driven condensation of strongly-coupled light-matter exciton-polaritons can enable new solid-state quantum simulations of “dark” state-condensate interactions, and was predicted to stimulate THz emission. Here, we report the first observation of two-photon pumped polariton condensation, demonstrated by angle-resolved photoluminescence in a GaAs-based microcavity. TPA is evidenced in the...

Registration Year

  • 2022
    85

Resource Types

  • Collection
    85

Affiliations

  • Ludwig-Maximilians-Universität München
    85
  • Sun Yat-sen University
    26
  • North West Agriculture and Forestry University
    24
  • Zhejiang University
    24
  • Guangdong Provincial Hospital of Traditional Chinese Medicine
    24
  • Chinese Academy of Medical Sciences & Peking Union Medical College
    24
  • Beihang University
    21
  • Shanghai University of Traditional Chinese Medicine
    21
  • Nanjing University
    20
  • Shandong Agricultural University
    20