1,393,214 Works

Supplementary material from "Mindreading in the balance: adults' mediolateral leaning and anticipatory looking foretell others’ action preparation in a false-belief interactive task"

Giovanni Zani, Stephen A. Butterfill & Jason Low
Anticipatory looking on mindreading tasks can indicate our expectation of an agent's action. The challenge is that social situations are often more complex, involving instances where we need to track an agent's false belief to successfully identify the outcome to which an action is directed. If motor processes can guide how action goals are understood, it is conceivable—where that kind of goal ascription occurs in false-belief tasks—for motor representations to account for someone's belief-like state....

Supplementary material from "Integration of shared-pathogen networks and machine learning reveals the key aspects of zoonoses and predicts mammalian reservoirs"

Maya Wardeh, Kieran J. Sharkey & Matthew Baylis
Diseases that spread to humans from animals, zoonoses, pose major threats to human health. Identifying animal reservoirs of zoonoses and predicting future outbreaks are increasingly important to human health and well-being and economic stability, particularly where research and resources are limited. Here, we integrate complex networks and machine learning approaches to develop a new approach to identifying reservoirs. An exhaustive dataset of mammal–pathogen interactions was transformed into networks where hosts are linked via their shared...

Supplementary material from "Integration of shared-pathogen networks and machine learning reveals the key aspects of zoonoses and predicts mammalian reservoirs"

Maya Wardeh, Kieran J. Sharkey & Matthew Baylis
Diseases that spread to humans from animals, zoonoses, pose major threats to human health. Identifying animal reservoirs of zoonoses and predicting future outbreaks are increasingly important to human health and well-being and economic stability, particularly where research and resources are limited. Here, we integrate complex networks and machine learning approaches to develop a new approach to identifying reservoirs. An exhaustive dataset of mammal–pathogen interactions was transformed into networks where hosts are linked via their shared...

Supplementary material from "Shifting levels of ecological network's analysis reveals different system properties"

Nathalie Niquil, Matilda Haraldsson, Télesphore Sime-Ngando, Philippe Huneman & Stuart R. Borrett
Network analyses applied to models of complex systems generally contain at least three levels of analyses. Whole-network metrics summarize general organizational features (properties or relationships) of the entire network, while node-level metrics summarize similar organization features but considering individual nodes at the time. The network- and node-level metrics build upon the primary pairwise relationships in the model. As with many analyses, sometimes there are interesting differences at one level that disappear in the summary at...

Supplementary material from "Migrating birds rapidly increase constitutive immune function during stopover"

Cas Eikenaar, Sven Hessler & Arne Hegemann
Migratory flight is physiologically highly demanding and has been shown to negatively affect multiple parameters of constitutive immune function (CIF), an animal's first line of physiological defence against infections. In between migratory flights, most birds make stopovers, periods during which they accumulate fuel for the next flight(s). Stopovers are also commonly thought of as periods of rest and recovery, but what this encompasses is largely undefined. Here, we show that during stopover, northern wheatears Oenanthe...

Supplementary material from "Constraining classifiers in molecular analysis: invariance and robustness"

Ludwig Lausser, Robin Szekely, Attila Klimmek, Florian Schmid & Hans A. Kestler
Analysing molecular profiles requires the selection of classification models that can cope with the high dimensionality and variability of this data. Also, improper reference point choice and scaling pose additional challenges. Often model selection is somewhat guided by ad hoc simulations rather than by sophisticated considerations on the properties of a categorization model. Here, we derive and report four linked linear concept classes/models with distinct invariance properties for high-dimensional molecular classification. We can further show...

Supplementary material from "Constraining classifiers in molecular analysis: invariance and robustness"

Ludwig Lausser, Robin Szekely, Attila Klimmek, Florian Schmid & Hans A. Kestler
Analysing molecular profiles requires the selection of classification models that can cope with the high dimensionality and variability of this data. Also, improper reference point choice and scaling pose additional challenges. Often model selection is somewhat guided by ad hoc simulations rather than by sophisticated considerations on the properties of a categorization model. Here, we derive and report four linked linear concept classes/models with distinct invariance properties for high-dimensional molecular classification. We can further show...

Supplementary material from "Shifting levels of ecological network's analysis reveals different system properties"

Nathalie Niquil, Matilda Haraldsson, Télesphore Sime-Ngando, Philippe Huneman & Stuart R. Borrett
Network analyses applied to models of complex systems generally contain at least three levels of analyses. Whole-network metrics summarize general organizational features (properties or relationships) of the entire network, while node-level metrics summarize similar organization features but considering individual nodes at the time. The network- and node-level metrics build upon the primary pairwise relationships in the model. As with many analyses, sometimes there are interesting differences at one level that disappear in the summary at...

MOESM15 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 15: Figure S13. Second and Third replicates: Contacting surface area at different concentrations of CLFchimera.

Supplementary material from "Migrating birds rapidly increase constitutive immune function during stopover"

Cas Eikenaar, Sven Hessler & Arne Hegemann
Migratory flight is physiologically highly demanding and has been shown to negatively affect multiple parameters of constitutive immune function (CIF), an animal's first line of physiological defence against infections. In between migratory flights, most birds make stopovers, periods during which they accumulate fuel for the next flight(s). Stopovers are also commonly thought of as periods of rest and recovery, but what this encompasses is largely undefined. Here, we show that during stopover, northern wheatears Oenanthe...

MOESM11 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 11: Figure S10. Minimum distances during 200 ns simulation.

MOESM15 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 15: Figure S13. Second and Third replicates: Contacting surface area at different concentrations of CLFchimera.

MOESM13 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 13: Figure S12. Third replicate: Number of hydrogen bonds with DNA at different concentrations of CLFchimera, (A) CLFchimera, (B) 2-CLFchimera, (C) 3-CLFchimera, (D) 4-CLFchimera.

Pcdhβ deficiency affects hippocampal CA1 ensemble activity and contextual fear discrimination

Hirotaka Asai, Noriaki Ohkawa, Yoshito Saitoh, Khaled Ghandour, Emi Murayama, Hirofumi Nishizono, Mina Matsuo, Teruyoshi Hirayama, Ryosuke Kaneko, Shin-Ichi Muramatsu, Takeshi Yagi & Kaoru Inokuchi
Abstract Clustered protocadherins (Pcdhs), a large group of adhesion molecules, are important for axonal projections and dendritic spread, but little is known about how they influence neuronal activity. The Pcdhβ cluster is strongly expressed in the hippocampus, and in vivo Ca2+ imaging in Pcdhβ-deficient mice revealed altered activity of neuronal ensembles but not of individual cells in this region in freely moving animals. Specifically, Pcdhβ deficiency increased the number of large-size neuronal ensembles and the...

MOESM14 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 14: Table S2. Interaction results from MD simulations of CLF-chimera concentration with DNA.

MOESM14 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 14: Table S2. Interaction results from MD simulations of CLF-chimera concentration with DNA.

MOESM12 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 12: Figure S11. Second replicate: Number of hydrogen bonds with DNA at different concentrations of CLFchimera, (A) CLFchimera, (B) 2-CLFchimera, (C) 3-CLFchimera, (D) 4-CLFchimera.

Pcdhβ deficiency affects hippocampal CA1 ensemble activity and contextual fear discrimination

Hirotaka Asai, Noriaki Ohkawa, Yoshito Saitoh, Khaled Ghandour, Emi Murayama, Hirofumi Nishizono, Mina Matsuo, Teruyoshi Hirayama, Ryosuke Kaneko, Shin-Ichi Muramatsu, Takeshi Yagi & Kaoru Inokuchi
Abstract Clustered protocadherins (Pcdhs), a large group of adhesion molecules, are important for axonal projections and dendritic spread, but little is known about how they influence neuronal activity. The Pcdhβ cluster is strongly expressed in the hippocampus, and in vivo Ca2+ imaging in Pcdhβ-deficient mice revealed altered activity of neuronal ensembles but not of individual cells in this region in freely moving animals. Specifically, Pcdhβ deficiency increased the number of large-size neuronal ensembles and the...

MOESM13 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 13: Figure S12. Third replicate: Number of hydrogen bonds with DNA at different concentrations of CLFchimera, (A) CLFchimera, (B) 2-CLFchimera, (C) 3-CLFchimera, (D) 4-CLFchimera.

MOESM8 of Transcriptome analysis reveals key genes involved in the regulation of nicotine biosynthesis at early time points after topping in tobacco (Nicotiana tabacum L.)

Yan Qin, Shenglong Bai, Wenzheng Li, Ting Sun, David Galbraith, Zefeng Yang, Yun Zhou, Guiling Sun & Bingwu Wang
Additional file 8: Table S3. DEGs involved in nicotine biosynthesis and transport after topping.

MOESM5 of Transcriptome analysis reveals key genes involved in the regulation of nicotine biosynthesis at early time points after topping in tobacco (Nicotiana tabacum L.)

Yan Qin, Shenglong Bai, Wenzheng Li, Ting Sun, David Galbraith, Zefeng Yang, Yun Zhou, Guiling Sun & Bingwu Wang
Additional file 5: Figure S5. KEGG overview of DEGs after topping in tobacco. The numbers in the picture represent the DEGs that were annotated to the metabolic pathway, with the percentage representing the ratio of this count to the number of DEGs annotated to the total metabolic pathway.

MOESM11 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 11: Figure S10. Minimum distances during 200 ns simulation.

MOESM10 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 10: Figure S9. Second and Third Replicates: Contribution to DNA binding free energies of amino-acid residues in CLFchimera.

MOESM12 of Interaction of camel Lactoferrin derived peptides with DNA: a molecular dynamics study

Zana Pirkhezranian, Mojtaba Tahmoorespur, Xavier Daura, Hassan Monhemi & Mohammad Sekhavati
Additional file 12: Figure S11. Second replicate: Number of hydrogen bonds with DNA at different concentrations of CLFchimera, (A) CLFchimera, (B) 2-CLFchimera, (C) 3-CLFchimera, (D) 4-CLFchimera.

MOESM8 of Transcriptome analysis reveals key genes involved in the regulation of nicotine biosynthesis at early time points after topping in tobacco (Nicotiana tabacum L.)

Yan Qin, Shenglong Bai, Wenzheng Li, Ting Sun, David Galbraith, Zefeng Yang, Yun Zhou, Guiling Sun & Bingwu Wang
Additional file 8: Table S3. DEGs involved in nicotine biosynthesis and transport after topping.

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