Search

Start Over Year Published 2021

21. Estimated The New York Times paragraph- and article-level sentiment on China topics, and aggregated survey attitude toward China

Author(s):
Huang, Junming; Cook, Gavin; Xie, Yu
Abstract:
Here we publish the data used in paper "Junming Huang, Gavin Cook, and Yu Xie, Large-scale Quantitative Evidence of Media Impact on Public Opinion toward China". This dataset include estimated sentiments on The New York Times on China in eight topics from 1970 to 2019, and a time series of public attitude aggregated from surveys on China.
Type:
Dataset
Issue Date:
July 2021

26. Code and data from "Comparative genomic analysis reveals varying levels of mammalian adaptation to coronavirus infections"

Author(s):
King, Sean
Abstract:
Severe acute respiratory coronavirus 2 (SARS-CoV-2), the causative agent of COVID-19, is of zoonotic origin. Evolutionary analyses assessing whether coronaviruses similar to SARS-CoV-2 infected ancestral species of modern-day animal hosts could be useful in identifying additional reservoirs of potentially dangerous coronaviruses. We reasoned that if a clade of species has been repeatedly exposed to a virus, then their proteins relevant for viral entry may exhibit adaptations that affect host susceptibility or response. We perform comparative analyses across the mammalian phylogeny of angiotensin-converting enzyme 2 (ACE2), the cellular receptor for SARS-CoV-2, in order to uncover evidence for selection acting at its binding interface with the SARS-CoV-2 spike protein. We uncover that in rodents there is evidence for adaptive amino acid substitutions at positions comprising the ACE2-spike interaction interface, whereas the variation within ACE2 proteins in primates and some other mammalian clades is not consistent with evolutionary adaptations. We also analyze aminopeptidase N (APN), the receptor for the human coronavirus 229E, a virus that causes the common cold, and find evidence for adaptation in primates. Altogether, our results suggest that the rodent and primate lineages may have had ancient exposures to viruses similar to SARS-CoV-2 and HCoV-229E, respectively. Included in this repository are the instructions and corresponding code required to build the dataset and run the analysis in the manuscript.
Type:
Dataset
Issue Date:
28 September 2021

28. Shakespeare and Company Project Dataset: Lending Library Books

Author(s):
Kotin, Joshua; Koeser, Rebecca Sutton; Adair, Carl; Alagappan, Serena; Allen, Paige; Bauer, Jean; Browne, Oliver J.; Budak, Nick; Calver, Harriet; Chow, Jin Yun; Davis, Ian; Doroudian, Gissoo; Engel, Currie; Gautreau, Violet; Gjaja, Alex; Green, Elspeth; Hart, Isaac; Hicks, Benjamin; Joelson, Madeleine E.; Kelly, Carolyn; Krolewski, Sara; Li, Xinyi; Maag, Ellie; Macksey, Elizabeth; Mahoney, Cate; Mancino, Francesca; McCarthy, Jesse D.; Naydan, Mary; Root, Sally; Ruehl, Isabel; Thode, Sylvie; Vandermel, Katherine; VanSant, Camey; Wulfman, Clifford E.
Abstract:
This dataset includes information about approximately 6,000 books and other items with bibliographic data as well as summary information about when the item circulated in the Shakespeare and Company lending library and the number of times an item was borrowed or purchased.
Type:
Dataset
Issue Date:
29 January 2021

29. Shakespeare and Company Project Dataset: Lending Library Events

Author(s):
Kotin, Joshua; Koeser, Rebecca Sutton; Adair, Carl; Alagappan, Serena; Allen, Paige; Bauer, Jean; Browne, Oliver J.; Budak, Nick; Calver, Harriet; Chow, Jin Yun; Davis, Ian; Doroudian, Gissoo; Engel, Currie; Gautreau, Violet; Gjaja, Alex; Green, Elspeth; Hart, Isaac; Hicks, Benjamin; Joelson, Madeleine E.; Kelly, Carolyn; Krolewski, Sara; Li, Xinyi; Maag, Ellie; Macksey, Elizabeth; Mahoney, Cate; Mancino, Francesca; McCarthy, Jesse D.; Naydan, Mary; Root, Sally; Ruehl, Isabel; Thode, Sylvie; Vandermel, Katherine; VanSant, Camey; Wulfman, Clifford E.
Abstract:
The Shakespeare and Company Project: Lending Library Events dataset includes information about approximately 35,000 lending library events including membership activities such as subscriptions, renewals and reimbursements and book-related activities such as borrowing and purchasing. For events related to lending library cards that are available as digital surrogates, IIIF links are provided.
Type:
Dataset
Issue Date:
29 January 2021

30. Shakespeare and Company Project Dataset: Lending Library Members

Author(s):
Kotin, Joshua; Koeser, Rebecca Sutton; Adair, Carl; Alagappan, Serena; Allen, Paige; Bauer, Jean; Browne, Oliver J.; Budak, Nick; Calver, Harriet; Chow, Jin Yun; Davis, Ian; Doroudian, Gissoo; Engel, Currie; Gautreau, Violet; Gjaja, Alex; Green, Elspeth; Hart, Isaac; Hicks, Benjamin; Joelson, Madeleine E.; Kelly, Carolyn; Krolewski, Sara; Li, Xinyi; Maag, Ellie; Macksey, Elizabeth; Mahoney, Cate; Mancino, Francesca; McCarthy, Jesse D.; Naydan, Mary; Root, Sally; Ruehl, Isabel; Thode, Sylvie; Vandermel, Katherine; VanSant, Camey; Wulfman, Clifford E.
Abstract:
The Shakespeare and Company Project: Lending Library Members dataset includes information about approximately 5,600 members of Sylvia Beach's Shakespeare and Company lending library.
Type:
Dataset
Issue Date:
29 January 2021

31. Shakespeare and Company Project Dataset: Lending Library Members, Books, Events

Author(s):
Kotin, Joshua; Koeser, Rebecca Sutton; Adair, Carl; Alagappan, Serena; Allen, Paige; Bauer, Jean; Browne, Oliver J.; Budak, Nick; Calver, Harriet; Chow, Jin Yun; Davis, Ian; Doroudian, Gissoo; Engel, Currie; Gautreau, Violet; Gjaja, Alex; Green, Elspeth; Hart, Isaac; Hicks, Benjamin; Joelson, Madeleine E.; Kelly, Carolyn; Krolewski, Sara; Li, Xinyi; Maag, Ellie; Macksey, Elizabeth; Mahoney, Cate; Mancino, Francesca; McCarthy, Jesse D.; Naydan, Mary; Root, Sally; Ruehl, Isabel; Thode, Sylvie; Vandermel, Katherine; VanSant, Camey; Wulfman, Clifford E.
Abstract:
The Shakespeare and Company Project makes three datasets available to download in CSV and JSON formats. The datasets provide information about lending library members; the books that circulated in the lending library; and lending library events, including borrows, purchases, memberships, and renewals. The datasets may be used individually or in combination site URLs are consistent identifiers across all three. The DOIs for each dataset are as follows: Members (https://doi.org/10.34770/nsa4-3t76); Books (https://doi.org/10.34770/079z-h206); Events (https://doi.org/10.34770/rtbp-kv40).
Type:
Dataset
Issue Date:
29 January 2021

32. Experimental data for paper "hydraulic transmissivity inferred from ice-sheet relaxation following Greenland supraglacial lake drainages"

Author(s):
Lai, Ching-Yao
Abstract:
This setup mimics ice lying above the drainage system. In the experiment, a fluid-filled blister is generated via liquid injection into the interface between a transparent elastic layer and a porous substrate. After injection of liquid, the fluid permeates from the blister through the porous substrate, the blister volume V(t) relaxes exponentially with time. Our lab experiments show that varying the permeability of the porous substrate k significantly impacts the relaxation timescale in the experiments.
Type:
Dataset
Issue Date:
18 May 2021

38. CrvA and CrvB form a curvature-inducing module sufficient to induce cell shape complexity in Gram-negative bacteria

Author(s):
Martin, Nicholas R; Blackman, Edith; Bratton, Benjamin P; Chase, Katelyn J; Bartlett, Thomas M; Gitai, Zemer
Abstract:
Bacterial species have diverse cell shapes that enable motility, colonization, and virulence. The cell wall defines bacterial shape and is primarily built by two cytoskeleton-guided synthesis machines, the elongasome and the divisome. However, the mechanisms producing complex shapes, like the curved-rod shape of Vibrio cholerae, are incompletely defined. Previous studies have reported that species-specific regulation of cytoskeleton-guided machines enables formation of complex bacterial shapes such as cell curvature and cellular appendages. In contrast, we report that CrvA and CrvB are sufficient to induce complex cell shape autonomously of the cytoskeleton in V. cholerae. The autonomy of the CrvAB module also enables it to induce curvature in the Gram-negative species Escherichia coli, Pseudomonas aeruginosa, Caulobacter crescentus, and Agrobacterium tumefaciens. Using inducible gene expression, quantitative microscopy, and biochemistry we show that CrvA and CrvB circumvent the need for patterning via cytoskeletal elements by regulating each other to form an asymmetrically-localized, periplasmic structure that directly binds to the cell wall. The assembly and disassembly of this periplasmic structure enables dynamic changes in cell shape. Bioinformatics indicate that CrvA and CrvB may have diverged from a single ancestral hybrid protein. Using fusion experiments in V. cholerae, we find that a synthetic CrvA/B hybrid protein is sufficient to induce curvature on its own, but that expression of two distinct proteins, CrvA and CrvB, promotes more rapid curvature induction. We conclude that morphological complexity can arise independently of cell shape specification by the core cytoskeleton-guided synthesis machines.
Type:
Dataset
Issue Date:
2021

40. Data from "Vapor-liquid equilibrium of water with the MB-pol many-body potential"

Author(s):
Muniz, Maria Carolina; Gartner III, Thomas E.; Riera, Marc; Knight, Christopher; Yue, Shuwen; Paesani, Francesco; Panagiotopoulos, Athanassios Z.
Abstract:
This dataset contains all data (including input files, simulation trajectories as well as other data files and analysis scripts) related to the publication "Vapor-liquid equilibrium of water with the MB-pol many-body potential" by Muniz et al. in preparation (2021). In this work, we assessed the performance of the MB-pol many-body potential with respect to water's vapor-liquid equilibrium properties. Through the use of direct coexistence molecular dynamics, we calculated properties such as coexistence densities, surface tension, vapor pressures and enthalpy of vaporization. We found that MB-pol is able to predict these properties in good agreement with experimental data. The results attest to the chemical accuracy of MB-pol and its large range of application across water's phase diagram.
Type:
Dataset
Issue Date:
2021