3,200 research outputs found
Temporal Fidelity in Dynamic Social Networks
It has recently become possible to record detailed social interactions in
large social systems with high resolution. As we study these datasets, human
social interactions display patterns that emerge at multiple time scales, from
minutes to months. On a fundamental level, understanding of the network
dynamics can be used to inform the process of measuring social networks. The
details of measurement are of particular importance when considering dynamic
processes where minute-to-minute details are important, because collection of
physical proximity interactions with high temporal resolution is difficult and
expensive. Here, we consider the dynamic network of proximity-interactions
between approximately 500 individuals participating in the Copenhagen Networks
Study. We show that in order to accurately model spreading processes in the
network, the dynamic processes that occur on the order of minutes are essential
and must be included in the analysis
Predicting B Cell Receptor Substitution Profiles Using Public Repertoire Data
B cells develop high affinity receptors during the course of affinity
maturation, a cyclic process of mutation and selection. At the end of affinity
maturation, a number of cells sharing the same ancestor (i.e. in the same
"clonal family") are released from the germinal center, their amino acid
frequency profile reflects the allowed and disallowed substitutions at each
position. These clonal-family-specific frequency profiles, called "substitution
profiles", are useful for studying the course of affinity maturation as well as
for antibody engineering purposes. However, most often only a single sequence
is recovered from each clonal family in a sequencing experiment, making it
impossible to construct a clonal-family-specific substitution profile. Given
the public release of many high-quality large B cell receptor datasets, one may
ask whether it is possible to use such data in a prediction model for
clonal-family-specific substitution profiles. In this paper, we present the
method "Substitution Profiles Using Related Families" (SPURF), a penalized
tensor regression framework that integrates information from a rich assemblage
of datasets to predict the clonal-family-specific substitution profile for any
single input sequence. Using this framework, we show that substitution profiles
from similar clonal families can be leveraged together with simulated
substitution profiles and germline gene sequence information to improve
prediction. We fit this model on a large public dataset and validate the
robustness of our approach on an external dataset. Furthermore, we provide a
command-line tool in an open-source software package
(https://github.com/krdav/SPURF) implementing these ideas and providing easy
prediction using our pre-fit models.Comment: 23 page
The Cityscapes Dataset for Semantic Urban Scene Understanding
Visual understanding of complex urban street scenes is an enabling factor for
a wide range of applications. Object detection has benefited enormously from
large-scale datasets, especially in the context of deep learning. For semantic
urban scene understanding, however, no current dataset adequately captures the
complexity of real-world urban scenes.
To address this, we introduce Cityscapes, a benchmark suite and large-scale
dataset to train and test approaches for pixel-level and instance-level
semantic labeling. Cityscapes is comprised of a large, diverse set of stereo
video sequences recorded in streets from 50 different cities. 5000 of these
images have high quality pixel-level annotations; 20000 additional images have
coarse annotations to enable methods that leverage large volumes of
weakly-labeled data. Crucially, our effort exceeds previous attempts in terms
of dataset size, annotation richness, scene variability, and complexity. Our
accompanying empirical study provides an in-depth analysis of the dataset
characteristics, as well as a performance evaluation of several
state-of-the-art approaches based on our benchmark.Comment: Includes supplemental materia
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