wanyu/IteraTeR_v2 huggingface dataset:
Original:  We illustrate that dynamical arrest in a highly confined space as a discriminating marker for genome organization, by modeling chromosome inside a nucleus as a self-avoiding homopolymer confined to a sphere of varying sizes.
Revised:  We illustrate that dynamical arrest in a highly confined space as a discriminating marker for genome organization, by modeling chromosome inside a nucleus as a homopolymer confined to a sphere of varying sizes.
Edit intent: clarity
Original:  Our study shows that the onset of glassy dynamics is the reason for the formation of segregated organization in human chromosomes (N\approx 3\times 10^9, \phi\gtrsim\phi_c^{\infty}), whereas chromosomes of budding yeast (N\approx 1.2\times 10 ^7 , \phi<\phi_c^{\infty}) are equilibrated with no clear signature of such organization.
Revised:  Our study shows that the onset of glassy dynamics is the reason for the segregated chromosome organization in human chromosomes (N\approx 3\times 10^9, \phi\gtrsim\phi_c^{\infty}), whereas chromosomes of budding yeast (N\approx 1.2\times 10 ^7 , \phi<\phi_c^{\infty}) are equilibrated with no clear signature of such organization.
Edit intent: clarity
Original:  Our study shows that the onset of glassy dynamics is the reason for the formation of segregated organization in human chromosomes (N\approx 3\times 10^9, \phi\gtrsim\phi_c^{\infty}), whereas chromosomes of budding yeast (N\approx 1.2\times 10 ^7 , \phi<\phi_c^{\infty}) are equilibrated with no clear signature of such organization.
Revised:  Our study shows that the onset of glassy dynamics is the reason for the formation of segregated organization in human (N\approx 3\times 10^9, \phi\gtrsim\phi_c^{\infty}), whereas chromosomes of budding yeast (N\approx 1.2\times 10 ^7 , \phi<\phi_c^{\infty}) are equilibrated with no clear signature of such organization.
Edit intent: clarity
Original:  Despite the development of SMT technologies, it is still difficult to reconcile a sparse signal at all times (required to distinguish single molecules) with long individual trajectories, which would be required for efficient Mean-Square Displacement-based analysis, within confined regions of the cell and given experimental limitations.
Revised:  Despite the development of SMT technologies, it is still difficult to reconcile a sparse signal at all times (required to distinguish single molecules) with long individual trajectories, within confined regions of the cell and given experimental limitations.
Edit intent: coherence
Original:   In this work, we develop and implement a new mathematical analysis method of SMT trajectories, which aims to take advantage of the (large ) number of (short) trajectories that are typically obtained with cellular systems in vivo.
Revised:  In this work, we develop and implement a new mathematical analysis method of SMT data, which takes advantage of the (large ) number of (short) trajectories that are typically obtained with cellular systems in vivo.
Edit intent: clarity
Original:   In this work, we develop and implement a new mathematical analysis method of SMT trajectories, which aims to take advantage of the (large ) number of (short) trajectories that are typically obtained with cellular systems in vivo.
Revised:  In this work, we develop and implement a new mathematical analysis method of SMT trajectories, which aims to take advantage of the large number of (short) trajectories that are typically obtained with cellular systems in vivo.
Edit intent: fluency
Original:  it uses a Bayesian approach to compare plausible molecule motion  and extract both qualitative and quantitative information.
Revised:  it uses a Bayesian approach to compare plausible molecule motion models and extract both qualitative and quantitative information.
Edit intent: clarity
Original: Deep learning refers to a shining branch of machine learning that is based on learning levels of representations.
Revised: Deep learning refers to the shining branch of machine learning that is based on learning levels of representations.
Edit intent: fluency
Original:  An additional source of radiation in the subsurface environments is secondary particles , such as muons generated by Galactic Cosmic Rays (GCRs).
Revised:  In addition to in situ sources in such environments, another source of radiation in the subsurface environments is secondary particles , such as muons generated by Galactic Cosmic Rays (GCRs).
Edit intent: clarity
Original:  An additional source of radiation in the subsurface environments is secondary particles , such as muons generated by Galactic Cosmic Rays (GCRs).
Revised:  An additional source of radiation in the subsurface environments is secondary particles generated by Galactic Cosmic Rays (GCRs).
Edit intent: clarity
Original:  Muon-induced radiolysis can produce H2 which is used by methanogens for abiotic hydrocarbon synthesis .
Revised:  Muon-induced radiolysis can produce H2 and other biologically useful products such as oxides and organics .
Edit intent: clarity
Original:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in deep subsurface environments, can be utilized for biological use . (1) GCRs injecting energy in the environment through muon-induced radiolysis, (2) organic synthesis from GCR secondaries interacting with the medium and (3) direct capture of radiation with the help of pigments such as melanin .
Revised:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in subsurface environments, can be utilized for biological use . (1) GCRs injecting energy in the environment through muon-induced radiolysis, (2) organic synthesis from GCR secondaries interacting with the medium and (3) direct capture of radiation with the help of pigments such as melanin .
Edit intent: clarity
Original:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in deep subsurface environments, can be utilized for biological use . (1) GCRs injecting energy in the environment through muon-induced radiolysis, (2) organic synthesis from GCR secondaries interacting with the medium and (3) direct capture of radiation with the help of pigments such as melanin .
Revised:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in deep subsurface environments, can be utilized for biological use : (1) GCRs injecting energy in the environment through muon-induced radiolysis, (2) organic synthesis from GCR secondaries interacting with the medium and (3) direct capture of radiation with the help of pigments such as melanin .
Edit intent: fluency
Original:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in deep subsurface environments, can be utilized for biological use . (1) GCRs injecting energy in the environment through muon-induced radiolysis, (2) organic synthesis from GCR secondaries interacting with the medium and (3) direct capture of radiation with the help of pigments such as melanin .
Revised:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in deep subsurface environments, can be utilized for biological use . (1) GCRs injecting energy in the environment through particle-induced radiolysis, and (2) organic synthesis from GCR secondaries interacting with the medium and (3) direct capture of radiation with the help of pigments such as melanin .
Edit intent: clarity
Original:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in deep subsurface environments, can be utilized for biological use . (1) GCRs injecting energy in the environment through muon-induced radiolysis, (2) organic synthesis from GCR secondaries interacting with the medium and (3) direct capture of radiation with the help of pigments such as melanin .
Revised:  We propose three mechanisms through which GCR-induced secondary particles, which are able to penetrate in deep subsurface environments, can be utilized for biological use . (1) GCRs injecting energy in the environment through muon-induced radiolysis, (2) organic synthesis from GCR secondaries interacting with the medium . Laboratory experiments to test these hypotheses are also proposed .
Edit intent: coherence
Original: Photosynthesis is a highly efficient mechanism developed by terrestrial life to utilize the energy from photons of solar origin for biological use.
Revised: Photosynthesis is a mechanism developed by terrestrial life to utilize the energy from photons of solar origin for biological use.
Edit intent: clarity
Original:  We propose two mechanisms through which GCR-induced secondary particles , which are able to penetrate in subsurface environments, can be utilized for biological use  : (1) GCRs injecting energy in the environment through particle-induced radiolysis, and (2) organic synthesis from GCR secondaries interacting with the medium.
Revised:  We propose two mechanisms through which GCR-induced secondary particles can be utilized for biological use : (1) GCRs injecting energy in the environment through particle-induced radiolysis, and (2) organic synthesis from GCR secondaries interacting with the medium.
Edit intent: coherence
Original:  We propose two mechanisms through which GCR-induced secondary particles , which are able to penetrate in subsurface environments, can be utilized for biological use  : (1) GCRs injecting energy in the environment through particle-induced radiolysis, and (2) organic synthesis from GCR secondaries interacting with the medium.
Revised:  We propose two mechanisms through which GCR-induced secondary particles , which are able to penetrate in subsurface environments, can be utilized for biological use in subsurface environments : (1) GCRs injecting energy in the environment through particle-induced radiolysis, and (2) organic synthesis from GCR secondaries interacting with the medium.
Edit intent: fluency
Original:  We discuss the implications of these mechanisms on finding life in the Solar System and elsewhere in the Universe  .
Revised:  Implications of these mechanisms on finding life in the Solar System and elsewhere in the Universe .
Edit intent: clarity
Original:  We discuss the implications of these mechanisms on finding life in the Solar System and elsewhere in the Universe  .
Revised:  We discuss the implications of these mechanisms on finding life in the Solar System and elsewhere in the Universe are discussed .
Edit intent: clarity
Original:  We then propose a model to grow multiplex networks based on two mechanisms of intra and inter-layer triadic closure which mimic the real processes in which collaborations evolve.
Revised:  We then propose a model to grow multiplex networks based on two mechanisms of intra and inter-layer triadic closure which mimic the real processes by which collaborations evolve.
Edit intent: clarity
Original: Quantitative fluorescence photoacoustic tomography ( QfPAT ) is a variant of quantitative photoacoustic tomography (PAT) that combines fluorescence optical tomography with ultrasound tomography to obtain high-resolution imaging of fluorescence distributions inside heterogeneous media.
Revised: Fluorescence photoacoustic tomography ( QfPAT ) is a variant of quantitative photoacoustic tomography (PAT) that combines fluorescence optical tomography with ultrasound tomography to obtain high-resolution imaging of fluorescence distributions inside heterogeneous media.
Edit intent: fluency
Original: Quantitative fluorescence photoacoustic tomography ( QfPAT ) is a variant of quantitative photoacoustic tomography (PAT) that combines fluorescence optical tomography with ultrasound tomography to obtain high-resolution imaging of fluorescence distributions inside heterogeneous media.
Revised: Quantitative fluorescence photoacoustic tomography ( fPAT ) is a variant of quantitative photoacoustic tomography (PAT) that combines fluorescence optical tomography with ultrasound tomography to obtain high-resolution imaging of fluorescence distributions inside heterogeneous media.
Edit intent: clarity
Original: Quantitative fluorescence photoacoustic tomography ( QfPAT ) is a variant of quantitative photoacoustic tomography (PAT) that combines fluorescence optical tomography with ultrasound tomography to obtain high-resolution imaging of fluorescence distributions inside heterogeneous media.
Revised: Quantitative fluorescence photoacoustic tomography ( QfPAT ) is a variant of quantitative photoacoustic tomography (PAT) with fluorescence imaging to obtain high-resolution imaging of fluorescence distributions inside heterogeneous media.
Edit intent: clarity
Original:  The objective of this work is to study inverse problems in QfPAT where we intend to reconstruct optical coefficients in a coupled system of radiative transport equations using internal data recovered from photoacoustic measurements.
Revised:  The objective of this work is to study inverse problems in the quantitative step of fPAT where we intend to reconstruct optical coefficients in a coupled system of radiative transport equations using internal data recovered from photoacoustic measurements.
Edit intent: clarity
Original:  We derive uniqueness and stability results on the inverse problems and develop some efficient algorithms for image reconstruction .
Revised:  We derive uniqueness and stability results on the inverse problems and develop some efficient algorithms for image reconstructions .
Edit intent: fluency
Original:  We verify this high profitability with robust statistical methods that take into account risk and trading costs, confirming the long-standing hypothesis that trading based social media sentiment can yield positive returns on investment.
Revised:  We verify this high profitability with robust statistical methods that take into account risk and trading costs, confirming the long-standing hypothesis that trading based social media sentiment has the potential to yield positive returns on investment.
Edit intent: clarity
Original:  We find that, although the evolution of individual ties is highly unpredictable, the macro-evolution of social communication networks follows well-defined statistical laws , characterized by exponentially decaying log-variations of the weight of social ties and of individuals' social strength.
Revised:  We find that, although the evolution of individual ties is highly unpredictable, the macro-evolution of social communication networks follows well-defined statistical patterns , characterized by exponentially decaying log-variations of the weight of social ties and of individuals' social strength.
Edit intent: clarity
Original: The topological structure of complex networks has fascinated researchers for several decades, and today we have a fairly good understanding of the types and reoccurring characteristics of many different complex networks.
Revised: The topological structure of complex networks has fascinated researchers for several decades, resulting in the discovery of many universal properties and reoccurring characteristics of many different complex networks.
Edit intent: clarity
Original: The topological structure of complex networks has fascinated researchers for several decades, and today we have a fairly good understanding of the types and reoccurring characteristics of many different complex networks.
Revised: The topological structure of complex networks has fascinated researchers for several decades, and today we have a fairly good understanding of the types and reoccurring characteristics of different kinds of networks.
Edit intent: clarity
Original:  However, surprisingly little is known today about models to compare complex graphs, and quantitatively measure their similarity and dynamics.
Revised:  However, much less is known today about models to compare complex graphs, and quantitatively measure their similarity and dynamics.
Edit intent: clarity
Original:  It does not rely on any arbitrary use-cased-based choice of calibration and is readily implementable and usable, as is.
Revised:  It does not rely on any arbitrary use-case-based choice of calibration and is readily implementable and usable, as is.
Edit intent: fluency
Original:  We show how to solve Longest Path on interval graphs , parameterized by vertex deletion number k to proper interval graphs, in O(k^{9} n) time.
Revised:  We show how to solve Longest Path on Interval Graphs , parameterized by vertex deletion number k to proper interval graphs, in O(k^{9} n) time.
Edit intent: fluency
Original:  From a more general perspective, we believe that the idea of using parameterized complexity analysis for polynomial-time solvable problems offers a very fertile ground for future studies for all sorts of algorithmic problems.
Revised:  From a more general perspective, we believe that using parameterized complexity analysis for polynomial-time solvable problems offers a very fertile ground for future studies for all sorts of algorithmic problems.
Edit intent: clarity
Original:  Here, we focus on a fundamental graph problem: Longest Path, that is, given an undirected graph, find a maximum-length path in G. Longest Path is NP-hard in general but known to be solvable in O(n ^4 ) time on n-vertex interval graphs.
Revised:  Here, we focus on a fundamental graph problem: Longest Path, that is, given an undirected graph, find a maximum-length path in G. Longest Path is NP-hard in general but known to be solvable in O(n ^{4 ) time on n-vertex interval graphs.
Edit intent: fluency
Original: The twin processes of viral evolutionary escape and reversion in response to host immune pressure, in particular the cytotoxic T-lymphocyte (CTL) response, helps shape Human Immunodeficiency Virus-1 sequence evolution in infected host populations.
Revised: The twin processes of viral evolutionary escape and reversion in response to host immune pressure, in particular the cytotoxic T-lymphocyte (CTL) response, shape Human Immunodeficiency Virus-1 sequence evolution in infected host populations.
Edit intent: coherence
Original:  These data suggest that escape rates in gag are consistent across host populations and, in general, epistatic effects do not dramatically affect escape rates .
Revised:  These data suggest that escape rates in Gag are consistent across host populations and, in general, epistatic effects do not dramatically affect escape rates .
Edit intent: fluency
Original: Recent work draws attention to community-community encounters (" community coalescence") as a frequent natural occurrence and an important factor shaping community structure .
Revised: Recent work draws attention to community-community encounters (" coalescence") as a frequent natural occurrence and an important factor shaping community structure .
Edit intent: fluency
Original: Recent work draws attention to community-community encounters (" community coalescence") as a frequent natural occurrence and an important factor shaping community structure .
Revised: Recent work draws attention to community-community encounters (" community coalescence") as likely an important factor shaping community structure .
Edit intent: clarity
Original: Recent work draws attention to community-community encounters (" community coalescence") as a frequent natural occurrence and an important factor shaping community structure .
Revised: Recent work draws attention to community-community encounters (" community coalescence") as a frequent natural occurrence and an important factor shaping natural ecosystems .
Edit intent: clarity
Original:  It is shown that the likelihood of a species to survive a coalescence event is best predicted by a community-level "fitness" of its parent community rather than the intrinsic fitness of the species itself.
Revised:  It is shown that the ability of a species to survive a coalescence event is best predicted by a community-level "fitness" of its parent community rather than the intrinsic fitness of the species itself.
Edit intent: clarity
Original:  It is shown that the likelihood of a species to survive a coalescence event is best predicted by a community-level "fitness" of its parent community rather than the intrinsic fitness of the species itself.
Revised:  It is shown that the likelihood of a species to survive a coalescence event is best predicted by a community-level "fitness" of its native community rather than the intrinsic fitness of the species itself.
Edit intent: clarity
Original:  It is shown that the likelihood of a species to survive a coalescence event is best predicted by a community-level "fitness" of its parent community rather than the intrinsic fitness of the species itself.
Revised:  It is shown that the likelihood of a species to survive a coalescence event is best predicted by a community-level "fitness" of its parent community rather than the intrinsic performance of the species itself.
Edit intent: clarity
Original:  Within the model presented here , the metaphor of a community as a coherent whole becomes mathematically exact.
Revised:  The model presented here , the metaphor of a community as a coherent whole becomes mathematically exact.
Edit intent: fluency
Original:  Importantly, this cohesion is shown to arise in a purely competitive setting as a generic consequence of division of labor, and requires no cooperative interactions .
Revised:  Importantly, this cohesion is shown to arise in a purely competitive setting as a generic consequence of division of labor, requires no cooperative interactions .
Edit intent: coherence
Original: Given a set P of non-intersecting polygonal obstacles in R^2 defined with n vertices, we compute a sketch \Omega of P whose size is independent of n  . We utilize \Omega to devise an algorithm to compute a (1+\epsilon)-approximate Euclidean shortest path between two points given with the description of P.
Revised: Given a set P of non-intersecting polygonal obstacles in R^2 defined with n vertices, we compute a sketch \Omega of P whose size is independent of n . We utilize \Omega to compute a (1+\epsilon)-approximate Euclidean shortest path between two points given with the description of P.
Edit intent: clarity
Original:  Here, \epsilon is a user parameter, and \delta is a small positive constant (resulting from the time for triangulating the free space of }\cal  , we devise a (2+\epsilon)-approximation algorithm to efficiently answer two-point Euclidean distance queries  .
Revised:  Here, \epsilon is a user parameter, and \delta is a small positive constant (resulting from the time for triangulating the free space of }\cal , we devise a (2+\epsilon)-approximation algorithm to answer two-point Euclidean distance queries .
Edit intent: clarity
Original: Despite large scale availability of social data, our understanding of the basic laws governing human behaviour remains limited, owing to the lack of a proper framework which can capture the interplay of various interdependent factors affecting social interactions.
Edit intent: coherence
Original:  In the recent years, multilayer networks has increasingly been realized to provide an efficient framework for understanding the intricacies of complex real world systems.
Revised:  In the recent years, the multilayer networks have increasingly been realized to provide an efficient framework for understanding the intricacies of complex real world systems.
Edit intent: fluency
Original:  The present study encompasses the multilayer network analysis of Bollywood, the largest film industry of the world, comprising of a massive time-varying social data .
Revised:  We analyze a massive time-varying social data .
Edit intent: clarity
Original:  While the degree-degree correlations of the whole networks reveal that in general nodes do not exhibit any particular preference for pairing up, multilayer framework indicates the gradual restoration of cooperation in the recent dataset.
Revised:  While the degree-degree correlations of entire networks being neutral, multilayering picks up different values of correlation indicating positive connotations like trust, in the recent dataset.
Edit intent: clarity