wanyu/IteraTeR_v2 huggingface dataset:
Original:  A modeling language must first be able to naturally represent both the complex intra and extra-cellular spatial structures, and their coupled dynamics of mechanical, chemical and electrical objects and processes.
Revised:  A modeling language must first be able to naturally represent complex intra and extra-cellular spatial structures, and their coupled dynamics of mechanical, chemical and electrical objects and processes.
Edit intent: clarity
Original:  A modeling language must first be able to naturally represent both the complex intra and extra-cellular spatial structures, and their coupled dynamics of mechanical, chemical and electrical objects and processes.
Revised:  A modeling language must first be able to naturally represent both the complex intra and extra-cellular spatial structures, and coupled mechanical, chemical and electrical objects and processes.
Edit intent: clarity
Original:  A modeling language must first be able to naturally represent both the complex intra and extra-cellular spatial structures, and their coupled dynamics of mechanical, chemical and electrical objects and processes.
Revised:  A modeling language must first be able to naturally represent both the complex intra and extra-cellular spatial structures, and their coupled dynamics of mechanical, chemical and electrical processes.
Edit intent: clarity
Original:  In order to be useful to domain experts, a modeling language should be based on mechanical and chemical constructs native to the problem domain.
Revised:  In order to be useful to domain experts, a modeling language should be based on concepts, terms and principles native to the problem domain.
Edit intent: clarity
Original:  Patent Retrieval (PR) is considered is the pillar of almost all patent analysis tasks.
Revised:  Patent Retrieval (PR) is considered the pillar of almost all patent analysis tasks.
Edit intent: fluency
Original:  It is clear that, recent successes and maturity in IR applications such as Web search can not be transferred directly to PR without deliberate domain adaptation and customization.
Revised:  It is clear that, recent successes and maturity in IR applications such as Web search cannot be transferred directly to PR without deliberate domain adaptation and customization.
Edit intent: fluency
Original:  These observations motivates the need for interactive search tools which provide cognitive assistance to patent professionals with minimal effort.
Revised:  These observations motivate the need for interactive search tools which provide cognitive assistance to patent professionals with minimal effort.
Edit intent: fluency
Original: Biological species have to cope with stochastic variations in both the external environment and the internal population dynamics.
Revised: Biological organisms have to cope with stochastic variations in both the external environment and the internal population dynamics.
Edit intent: clarity
Original:  Theoretical studies and laboratory experiments suggest that population diversification could be an effective bet-hedging strategy for adaptation to temporally varying environments.
Revised:  Theoretical studies and laboratory experiments suggest that population diversification could be an effective bet-hedging strategy for adaptation to varying environments.
Edit intent: clarity
Original:  Here we show that bet-hedging can also be effective against demographic fluctuations that cause extinction of local populations .
Revised:  Here we show that bet-hedging can also be effective against demographic fluctuations that pose a trade-off between growth and survival for populations even in a constant environment .
Edit intent: clarity
Original:  The results show that organisms can use bet-hedging as a common defense mechanism against different types of uncertainties in population growth.
Revised:  In this way we unify different bet-hedging as a common defense mechanism against different types of uncertainties in population growth.
Edit intent: clarity
Original:  The results show that organisms can use bet-hedging as a common defense mechanism against different types of uncertainties in population growth.
Revised:  The results show that organisms can use bet-hedging strategies against demographic and environmental variations as a general means of adaptation to both types of uncertainties in population growth.
Edit intent: clarity
Original:  A parallel versi\'on of an evolutionary algorithm for determining the global optimality is depicted.
Revised:  A parallel version of an evolutionary algorithm for determining the global optimality is depicted.
Edit intent: fluency
Original:  The results presented are from a stand alone program for a personal computer of the evolutionary algorithm, which is able to estimate all putative Optimal LJ Clusters from 13 to 1612 particles.
Revised:  The results presented are from a standalone program for a personal computer of the evolutionary algorithm, which is able to estimate all putative Optimal LJ Clusters from 13 to 1612 particles.
Edit intent: fluency
Original:  The results presented are from a stand alone program for a personal computer of the evolutionary algorithm, which is able to estimate all putative Optimal LJ Clusters from 13 to 1612 particles.
Revised:  The results presented are from a stand alone program for a personal computer of the evolutionary algorithm, which can estimate all putative Optimal LJ Clusters from 13 to 1612 particles.
Edit intent: clarity
Original:  The results presented are from a stand alone program for a personal computer of the evolutionary algorithm, which is able to estimate all putative Optimal LJ Clusters from 13 to 1612 particles.
Revised:  The results presented are from a stand alone program for a personal computer of the evolutionary algorithm, which is able to estimate all putative optimal Lennard Jones Clusters from 13 to 1612 particles.
Edit intent: clarity
Original:  Also, the stand alone program is not only capable to replicate the optimal LJ clusters in The Cambridge Cluster Database (CCD), but to find new ones.
Revised:  Also, the standalone program is not only capable to replicate the optimal LJ clusters in The Cambridge Cluster Database (CCD), but to find new ones.
Edit intent: fluency
Original:  Of such is the recognition of self and nonself cells by the immune system.
Revised:  One such example is the recognition of self and nonself cells by the immune system.
Edit intent: clarity
Original:  We introduce a new distributed representation of amino acids, named HLA-Vec, that can be used for a variety of downstream proteomic machine learning tasks.
Revised:  We introduce a new distributed representation of amino acids, name HLA-Vec, that can be used for a variety of downstream proteomic machine learning tasks.
Edit intent: fluency
Original:  We then propose a deep convolutional neurerror can be used only in preambleal network architecture, named HLA-CNN, for the task of HLA class I-peptide binding prediction.
Revised:  We then propose a deep convolutional neural network architecture, named HLA-CNN, for the task of HLA class I-peptide binding prediction.
Edit intent: coherence
Original:  We then propose a deep convolutional neurerror can be used only in preambleal network architecture, named HLA-CNN, for the task of HLA class I-peptide binding prediction.
Revised:  We then propose a deep convolutional neurerror can be used only in preambleal network architecture, name HLA-CNN, for the task of HLA class I-peptide binding prediction.
Edit intent: fluency
Original:  Experimental results show combining the new distributed representation with our HLA-CNN architecture acheives state-of-the-art results in the vast majority of the latest two Immune Epitope Database (IEDB) weekly automated benchmark datasets  .
Revised:  Experimental results show combining the new distributed representation with our HLA-CNN architecture achieves state-of-the-art results in the vast majority of the latest two Immune Epitope Database (IEDB) weekly automated benchmark datasets .
Edit intent: fluency
Original:  Experimental results show combining the new distributed representation with our HLA-CNN architecture acheives state-of-the-art results in the vast majority of the latest two Immune Epitope Database (IEDB) weekly automated benchmark datasets  .
Revised:  Experimental results show combining the new distributed representation with our HLA-CNN architecture acheives state-of-the-art results in the majority of the latest two Immune Epitope Database (IEDB) weekly automated benchmark datasets .
Edit intent: clarity
Original:  Thus the most natural version of the problem is still wide open: Can we cut any collection of n disjoint triangles in }{\Bbb   an algorithm that cuts any collection of n disjoint triangles in R {\Bbb  ^3 into O(n^{7/4} polylog\;
Revised:  Thus the most natural version of the problem is still wide open: Can we cut any collection of n disjoint triangles in }{\Bbb an algorithm that cuts any set of n disjoint triangles in R {\Bbb ^3 into O(n^{7/4} polylog\;
Edit intent: clarity
Original:  Thus the most natural version of the problem is still wide open: Can we cut any collection of n disjoint triangles in }{\Bbb   an algorithm that cuts any collection of n disjoint triangles in R {\Bbb  ^3 into O(n^{7/4} polylog\;
Revised:  Thus the most natural version of the problem is still wide open: Can we cut any collection of n disjoint triangles in }{\Bbb an algorithm that cuts any collection of n disjoint triangles in {\Bbb ^3 into O(n^{7/4} polylog\;
Edit intent: clarity
Original:  } n) triangular fragments such that all cycles in the depth-order relation are eliminated .
Revised:  } n) triangular fragments that admit a depth order .
Edit intent: clarity
Original:  We also prove a refined bound , which depends on the number, K, of intersections between the projections of the triangle edges onto the xy-plane .
Revised:  We also prove a refined bound that depends on the number, K, of intersections between the projections of the triangle edges onto the xy-plane .
Edit intent: coherence
Original:  The proposed complex correlation method (iCorr) converts the genome sequence into a sequence of complex numbers by mapping the nucleotides to {+1,-1,+i, - i } instead of {+1,-1} used in the auto-correlation method (here, 'i' is square root of -1).
Revised:  The proposed complex correlation method (iCorr) converts the genome sequence into a sequence of complex numbers by mapping the nucleotides to {+1,-1,+i, -i } instead of {+1,-1} used in the auto-correlation method (here, 'i' is square root of -1).
Edit intent: fluency
Original: Much of the information the brain processes and stores is temporal in nature - a spoken word or a handwritten signature is defined as much by how it unfolds in time as by its spatial structure at any given moment in time.
Revised: Much of the information the brain processes and stores is temporal in nature - a spoken word or a handwritten signature , for example, is defined by how it unfolds in time as by its spatial structure at any given moment in time.
Edit intent: clarity
Original:  It remains unclear how neural circuits encode such patterns.
Revised:  It remains unclear how neural circuits encode complex time-varying patterns.
Edit intent: clarity
Original:  We show that the same recurrent neural network model can simultaneously encode time-varying sensory and motor patterns as continuous neural trajectories.
Revised:  We show that by tuning the weights of a recurrent neural network model can simultaneously encode time-varying sensory and motor patterns as continuous neural trajectories.
Edit intent: clarity
Original:  Crucially, this representation endows the network with the brain-like property of temporal invariance - the network is able to identify the same stimulus played at different speeds .
Revised:  Crucially, this representation endows the network with the brain-like property of temporal invariance - the network is able to identify the same stimuli played at different speeds .
Edit intent: fluency
Original:  Also, two link failure protection makes the network more resilient by taking care of double failures having overlapping protection.
Revised:  Also, two link failure protection will make the network more resilient by taking care of double failures having overlapping protection.
Edit intent: coherence
Original:  Also, two link failure protection makes the network more resilient by taking care of double failures having overlapping protection.
Revised:  Also, two link failure protection makes the network more resilient by protecting double failures having overlapping protection.
Edit intent: clarity
Original:  Integer linear program (ILP) is formulated for the proposed as well as DB method.
Revised:  Integer linear programs (ILP) is formulated for the proposed as well as DB method.
Edit intent: fluency
Original:  Integer linear program (ILP) is formulated for the proposed as well as DB method.
Revised:  Integer linear program (ILP) are formulated for the proposed as well as DB method.
Edit intent: fluency
Original:  It was observed that the proposed method is simpler and performs better than the DB method.
Revised:  It has been observed that the proposed method is simpler and performs better than the DB method.
Edit intent: clarity
Original: The images obtained from cryo electron microscopy are the projection of many heterogeneous instances of the object under study (e.g., a virus).
Revised: The images obtained from cryo electron microscopy are the projection of many heterogeneous instances of the particle under study (e.g., a virus).
Edit intent: clarity
Original:  This algorithm is demonstrated on bacteriophage HK97 and is contrasted with existing algorithms in which each object, while still heterogeneous, has the symmetry . Reconstruction results show that the proposed algorithm eliminates long-standing distortions in previous heterogeneity calculations associated with symmetry axes, and provides estimates that make more biological sense than the estimates of existing algorithms .
Revised:  This algorithm is demonstrated on bacteriophage HK97 . The results are contrasted with existing algorithms in which each object, while still heterogeneous, has the symmetry . Reconstruction results show that the proposed algorithm eliminates long-standing distortions in previous heterogeneity calculations associated with symmetry axes, and provides estimates that make more biological sense than the estimates of existing algorithms .
Edit intent: coherence
Original:  This algorithm is demonstrated on bacteriophage HK97 and is contrasted with existing algorithms in which each object, while still heterogeneous, has the symmetry . Reconstruction results show that the proposed algorithm eliminates long-standing distortions in previous heterogeneity calculations associated with symmetry axes, and provides estimates that make more biological sense than the estimates of existing algorithms .
Revised:  This algorithm is demonstrated on bacteriophage HK97 and is contrasted with existing algorithms which assume that each instance of the particle has the symmetry . Reconstruction results show that the proposed algorithm eliminates long-standing distortions in previous heterogeneity calculations associated with symmetry axes, and provides estimates that make more biological sense than the estimates of existing algorithms .
Edit intent: clarity
Original: Cryo electron microscopy provides 2-D projection images of the 3-D electron scattering intensity of many instances of the particle under study (e.g., a virus).
Revised: Cryo-electron microscopy provides 2-D projection images of the 3-D electron scattering intensity of many instances of the particle under study (e.g., a virus).
Edit intent: fluency
Original:  The algorithm is demonstrated on  bacteriophage HK97 \omegaV .
Revised:  The algorithm is demonstrated on the bacteriophage HK97 \omegaV .
Edit intent: fluency
Original:  In this paper we address the following questions: (i) Can an \epsilon-optimal partition be found in an explicitbounded dimension n(\epsilon) ? (ii) Is such an \epsilon- partition computable?
Revised:  In this paper , we give an explicit, computable function n(\epsilon) ? (ii) Is such an \epsilon- partition computable?
Edit intent: clarity
Original:  However, outside of this degenerate setting , the answer to this question is understood in very few cases.
Revised:  However, other than this special case , the answer to this question is understood in very few cases.
Edit intent: clarity
Original: The cell has the ability to convert an extracellular biochemical change into the expression of genetic information through a chain of intracellular cycle reactionswith information conversion .
Revised: A cell has the ability to convert an extracellular biochemical change into the expression of genetic information through a chain of intracellular cycle reactionswith information conversion .
Edit intent: fluency
Original: The cell has the ability to convert an extracellular biochemical change into the expression of genetic information through a chain of intracellular cycle reactionswith information conversion .
Revised: The cell has the ability to convert an environmental change into the expression of genetic information through a chain of intracellular cycle reactionswith information conversion .
Edit intent: clarity
Original: The cell has the ability to convert an extracellular biochemical change into the expression of genetic information through a chain of intracellular cycle reactionswith information conversion .
Revised: The cell has the ability to convert an extracellular biochemical change into the expression of genetic information through a chain of intracellular signal transduction reactions .
Edit intent: clarity
Original: The control of brain dynamics provides great promise for the enhancement of cognitive function in humans, and by extension the betterment of their quality of life.
Revised: The ability to effectively control brain dynamics holds great promise for the enhancement of cognitive function in humans, and by extension the betterment of their quality of life.
Edit intent: clarity
Original: The control of brain dynamics provides great promise for the enhancement of cognitive function in humans, and by extension the betterment of their quality of life.
Revised: The control of brain dynamics provides great promise for the enhancement of cognitive function in humans, and the betterment of their quality of life.
Edit intent: clarity
Original:  Yet, successfully controlling dynamics in neural systems is particularly challenging, not least due to the immense complexity of the brain and the large set of interactions that can affect any single change.
Revised:  Yet, successfully controlling dynamics in neural systems is challenging, in part due to the immense complexity of the brain and the large set of interactions that can affect any single change.
Edit intent: clarity
Original:  Yet, successfully controlling dynamics in neural systems is particularly challenging, not least due to the immense complexity of the brain and the large set of interactions that can affect any single change.
Revised:  Yet, successfully controlling dynamics in neural systems is particularly challenging, not least due to the immense complexity of the brain and the large set of interactions that can drive any single change.
Edit intent: clarity
Original:  While we have gained some understanding of the control of single neurons, the control of large-scale neural systems---networks of multiply interacting components---remains poorly understood.
Revised:  While we have gained some understanding of the control of single neurons, the control of large-scale neural systems -- networks of multiply interacting components---remains poorly understood.
Edit intent: fluency
Original:  While we have gained some understanding of the control of single neurons, the control of large-scale neural systems---networks of multiply interacting components---remains poorly understood.
Revised:  While we have gained some understanding of the control of single neurons, the control of large-scale neural systems---networks of multiply interacting components -- remains poorly understood.
Edit intent: fluency
Original:  Efforts to address this gap include the recent development of new tools for the control of brain networks, mostly adapted from control and dynamical systems theory.
Revised:  Efforts to address this gap include the construction of tools for the control of brain networks, mostly adapted from control and dynamical systems theory.
Edit intent: clarity
Original:  These theoretical contributions provide new models that draw from a wide array of mathematical approaches , and have been directly informed by current opportunities for practical intervention .
Revised:  Informed by current opportunities for practical intervention, these theoretical contributions provide new models that draw from a wide array of mathematical approaches , and have been directly informed by current opportunities for practical intervention .
Edit intent: style
Original:  These theoretical contributions provide new models that draw from a wide array of mathematical approaches , and have been directly informed by current opportunities for practical intervention .
Revised:  These theoretical contributions provide models that draw from a wide array of mathematical approaches , and have been directly informed by current opportunities for practical intervention .
Edit intent: clarity
Original:  These theoretical contributions provide new models that draw from a wide array of mathematical approaches , and have been directly informed by current opportunities for practical intervention .
Revised:  These theoretical contributions provide new models that draw from a wide array of mathematical approaches .
Edit intent: clarity
Original:  We present intriguing recent developments for  strategies of control in dynamic brain networks, and we also describe potential mechanisms that underlie such processes.
Revised:  We present intriguing recent developments for effective strategies of control in dynamic brain networks, and we also describe potential mechanisms that underlie such processes.
Edit intent: clarity
Original:  We conclude by highlighting new results from network control---especially approaches that deal with nonlinear dynamics or more realistic trajectories for control transitions---that could be of great relevance to addressing pressing questions in neuroscience.
Revised:  We conclude with a forward-looking discussion regarding how emerging results from network control---especially approaches that deal with nonlinear dynamics or more realistic trajectories for control transitions---that could be of great relevance to addressing pressing questions in neuroscience.
Edit intent: clarity
Original:  We conclude by highlighting new results from network control---especially approaches that deal with nonlinear dynamics or more realistic trajectories for control transitions---that could be of great relevance to addressing pressing questions in neuroscience.
Revised:  We conclude by highlighting new results from network control -- especially approaches that deal with nonlinear dynamics or more realistic trajectories for control transitions---that could be of great relevance to addressing pressing questions in neuroscience.
Edit intent: fluency
Original:  We conclude by highlighting new results from network control---especially approaches that deal with nonlinear dynamics or more realistic trajectories for control transitions---that could be of great relevance to addressing pressing questions in neuroscience.
Revised:  We conclude by highlighting new results from network control---especially approaches that deal with nonlinear dynamics or more realistic trajectories for control transitions -- could be used to directly address pressing questions in neuroscience.
Edit intent: clarity