---
_id: '3237'
abstract:
- lang: eng
  text: 'Blinding is a popular and well-known countermeasure to protect public-key
    cryptosystems against side-channel attacks. The high level idea is to randomize
    an exponentiation in order to prevent multiple measurements of the same operation
    on different data, as such measurements might allow the adversary to learn the
    secret exponent. Several variants of blinding have been proposed in the literature,
    using additive or multiplicative secret-sharing to blind either the base or the
    exponent. These countermeasures usually aim at preventing particular side-channel
    attacks (mostly power analysis) and come without any formal security guarantee.
    In this work we investigate to which extend blinding can provide provable security
    against a general class of side-channel attacks. Surprisingly, it turns out that
    in the context of public-key encryption some blinding techniques are more suited
    than others. In particular, we consider a multiplicatively blinded version of
    ElGamal public-key encryption where - we prove that the scheme, instantiated over
    bilinear groups of prime order p (where p - 1 is not smooth) is leakage resilient
    in the generic-group model. Here we consider the model of chosen-ciphertext security
    in the presence of continuous leakage, i.e., the scheme remains chosen-ciphertext
    secure even if with every decryption query the adversary can learn a bounded amount
    (roughly log(p)/2 bits) of arbitrary, adversarially chosen information about the
    computation. - we conjecture that the scheme, instantiated over arbitrary groups
    of prime order p (where p - 1 is not smooth) is leakage resilient. Previous to
    this work no encryption scheme secure against continuous leakage was known. Constructing
    a scheme that can be proven secure in the standard model remains an interesting
    open problem. '
alternative_title:
- LNCS
author:
- first_name: Eike
  full_name: Kiltz, Eike
  last_name: Kiltz
- first_name: Krzysztof Z
  full_name: Krzysztof Pietrzak
  id: 3E04A7AA-F248-11E8-B48F-1D18A9856A87
  last_name: Pietrzak
  orcid: 0000-0002-9139-1654
citation:
  ama: 'Kiltz E, Pietrzak KZ. Leakage resilient ElGamal encryption. In: Vol 6477.
    Springer; 2010:595-612. doi:<a href="https://doi.org/10.1007/978-3-642-17373-8_34">10.1007/978-3-642-17373-8_34</a>'
  apa: 'Kiltz, E., &#38; Pietrzak, K. Z. (2010). Leakage resilient ElGamal encryption
    (Vol. 6477, pp. 595–612). Presented at the ASIACRYPT: Theory and Application of
    Cryptology and Information Security, Springer. <a href="https://doi.org/10.1007/978-3-642-17373-8_34">https://doi.org/10.1007/978-3-642-17373-8_34</a>'
  chicago: Kiltz, Eike, and Krzysztof Z Pietrzak. “Leakage Resilient ElGamal Encryption,”
    6477:595–612. Springer, 2010. <a href="https://doi.org/10.1007/978-3-642-17373-8_34">https://doi.org/10.1007/978-3-642-17373-8_34</a>.
  ieee: 'E. Kiltz and K. Z. Pietrzak, “Leakage resilient ElGamal encryption,” presented
    at the ASIACRYPT: Theory and Application of Cryptology and Information Security,
    2010, vol. 6477, pp. 595–612.'
  ista: 'Kiltz E, Pietrzak KZ. 2010. Leakage resilient ElGamal encryption. ASIACRYPT:
    Theory and Application of Cryptology and Information Security, LNCS, vol. 6477,
    595–612.'
  mla: Kiltz, Eike, and Krzysztof Z. Pietrzak. <i>Leakage Resilient ElGamal Encryption</i>.
    Vol. 6477, Springer, 2010, pp. 595–612, doi:<a href="https://doi.org/10.1007/978-3-642-17373-8_34">10.1007/978-3-642-17373-8_34</a>.
  short: E. Kiltz, K.Z. Pietrzak, in:, Springer, 2010, pp. 595–612.
conference:
  name: 'ASIACRYPT: Theory and Application of Cryptology and Information Security'
date_created: 2018-12-11T12:02:11Z
date_published: 2010-01-14T00:00:00Z
date_updated: 2021-01-12T07:42:01Z
day: '14'
doi: 10.1007/978-3-642-17373-8_34
extern: 1
intvolume: '      6477'
month: '01'
page: 595 - 612
publication_status: published
publisher: Springer
publist_id: '3444'
quality_controlled: 0
status: public
title: Leakage resilient ElGamal encryption
type: conference
volume: 6477
year: '2010'
...
---
_id: '3294'
abstract:
- lang: eng
  text: 'Olfactory responses of Drosophila undergo pronounced changes after eclosion.
    The flies develop attraction to odors to which they are exposed and aversion to
    other odors. Behavioral adaptation is correlated with changes in the firing pattern
    of olfactory receptor neurons (ORNs). In this article, we present an information-theoretic
    analysis of the firing pattern of ORNs. Flies reared in a synthetic odorless medium
    were transferred after eclosion to three different media: (i) a synthetic medium
    relatively devoid of odor cues, (ii) synthetic medium infused with a single odorant,
    and (iii) complex cornmeal medium rich in odors. Recordings were made from an
    identified sensillum (type II), and the Jensen-Shannon divergence (D(JS)) was
    used to assess quantitatively the differences between ensemble spike responses
    to different odors. Analysis shows that prolonged exposure to ethyl acetate and
    several related esters increases sensitivity to these esters but does not improve
    the ability of the fly to distinguish between them. Flies exposed to cornmeal
    display varied sensitivity to these odorants and at the same time develop greater
    capacity to distinguish between odors. Deprivation of odor experience on an odorless
    synthetic medium leads to a loss of both sensitivity and acuity. Rich olfactory
    experience thus helps to shape the ORNs response and enhances its discriminative
    power. The experiments presented here demonstrate an experience-dependent adaptation
    at the level of the receptor neuron.'
author:
- first_name: Atulya
  full_name: Iyengar, Atulya
  last_name: Iyengar
- first_name: Subhra
  full_name: Chakraborty Tuhin, Subhra
  last_name: Chakraborty Tuhin
- first_name: Sarit
  full_name: Sarit Goswami
  id: 3A578F32-F248-11E8-B48F-1D18A9856A87
  last_name: Goswami
- first_name: Chun
  full_name: Wu, Chun Fang
  last_name: Wu
- first_name: Obaid
  full_name: Siddiqi, Obaid
  last_name: Siddiqi
citation:
  ama: Iyengar A, Chakraborty Tuhin S, Goswami S, Wu C, Siddiqi O. Post eclosion odor
    experience modifies olfactory receptor neuron coding in Drosophila. <i>PNAS</i>.
    2010;107(21):9855-9860. doi:<a href="https://doi.org/10.1073/pnas.1003856107">10.1073/pnas.1003856107</a>
  apa: Iyengar, A., Chakraborty Tuhin, S., Goswami, S., Wu, C., &#38; Siddiqi, O.
    (2010). Post eclosion odor experience modifies olfactory receptor neuron coding
    in Drosophila. <i>PNAS</i>. National Academy of Sciences. <a href="https://doi.org/10.1073/pnas.1003856107">https://doi.org/10.1073/pnas.1003856107</a>
  chicago: Iyengar, Atulya, Subhra Chakraborty Tuhin, Sarit Goswami, Chun Wu, and
    Obaid Siddiqi. “Post Eclosion Odor Experience Modifies Olfactory Receptor Neuron
    Coding in Drosophila.” <i>PNAS</i>. National Academy of Sciences, 2010. <a href="https://doi.org/10.1073/pnas.1003856107">https://doi.org/10.1073/pnas.1003856107</a>.
  ieee: A. Iyengar, S. Chakraborty Tuhin, S. Goswami, C. Wu, and O. Siddiqi, “Post
    eclosion odor experience modifies olfactory receptor neuron coding in Drosophila,”
    <i>PNAS</i>, vol. 107, no. 21. National Academy of Sciences, pp. 9855–60, 2010.
  ista: Iyengar A, Chakraborty Tuhin S, Goswami S, Wu C, Siddiqi O. 2010. Post eclosion
    odor experience modifies olfactory receptor neuron coding in Drosophila. PNAS.
    107(21), 9855–60.
  mla: Iyengar, Atulya, et al. “Post Eclosion Odor Experience Modifies Olfactory Receptor
    Neuron Coding in Drosophila.” <i>PNAS</i>, vol. 107, no. 21, National Academy
    of Sciences, 2010, pp. 9855–60, doi:<a href="https://doi.org/10.1073/pnas.1003856107">10.1073/pnas.1003856107</a>.
  short: A. Iyengar, S. Chakraborty Tuhin, S. Goswami, C. Wu, O. Siddiqi, PNAS 107
    (2010) 9855–60.
date_created: 2018-12-11T12:02:31Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2021-01-12T07:42:27Z
day: '01'
doi: 10.1073/pnas.1003856107
extern: 1
intvolume: '       107'
issue: '21'
month: '01'
page: 9855 - 60
publication: PNAS
publication_status: published
publisher: National Academy of Sciences
publist_id: '3347'
quality_controlled: 0
status: public
title: Post eclosion odor experience modifies olfactory receptor neuron coding in
  Drosophila
type: journal_article
volume: 107
year: '2010'
...
---
_id: '3296'
abstract:
- lang: eng
  text: "Accurate computational representations of highly deformable surfaces are
    indispensable in the fields of computer animation, medical simulation, computer
    vision, digital modeling, and computational physics. The focus of this dissertation
    is on the animation of physics-based phenomena with highly detailed deformable
    surfaces represented by triangle meshes.\r\n \r\nWe first present results from
    an algorithm that generates continuum mechanics animations with intricate surface
    features. This method combines a finite element method with a tetrahedral mesh
    generator and a high resolution surface mesh, and it is orders of magnitude more
    efficient than previous approaches. Next, we present an efficient solution for
    the challenging problem of computing topological changes in detailed dynamic surface
    meshes. We then introduce a new physics-inspired surface tracking algorithm that
    is capable of preserving arbitrarily thin features and reproducing realistic fine-scale
    topological changes like Rayleigh-Plateau instabilities. This physics-inspired
    surface tracking technique also opens the door for a unique coupling between surficial
    finite element methods and volumetric finite difference methods, in order to simulate
    liquid surface tension phenomena more efficiently than any previous method. Due
    to its dramatic increase in computational resolution and efficiency, this method
    yielded the first computer simulations of a fully developed crown splash with
    droplet pinch off."
article_processing_charge: No
author:
- first_name: Christopher J
  full_name: Wojtan, Christopher J
  id: 3C61F1D2-F248-11E8-B48F-1D18A9856A87
  last_name: Wojtan
  orcid: 0000-0001-6646-5546
citation:
  ama: Wojtan C. Animating physical phenomena with embedded surface meshes. 2010:1-175.
  apa: Wojtan, C. (2010). <i>Animating physical phenomena with embedded surface meshes</i>.
    Georgia Institute of Technology.
  chicago: Wojtan, Chris. “Animating Physical Phenomena with Embedded Surface Meshes.”
    Georgia Institute of Technology, 2010.
  ieee: C. Wojtan, “Animating physical phenomena with embedded surface meshes,” Georgia
    Institute of Technology, 2010.
  ista: Wojtan C. 2010. Animating physical phenomena with embedded surface meshes.
    Georgia Institute of Technology.
  mla: Wojtan, Chris. <i>Animating Physical Phenomena with Embedded Surface Meshes</i>.
    Georgia Institute of Technology, 2010, pp. 1–175.
  short: C. Wojtan, Animating Physical Phenomena with Embedded Surface Meshes, Georgia
    Institute of Technology, 2010.
date_created: 2018-12-11T12:02:31Z
date_published: 2010-11-17T00:00:00Z
date_updated: 2023-02-23T11:21:00Z
day: '17'
extern: '1'
language:
- iso: eng
main_file_link:
- url: http://hdl.handle.net/1853/37256
month: '11'
oa_version: None
page: 1 - 175
publication_status: published
publisher: Georgia Institute of Technology
publist_id: '3345'
status: public
supervisor:
- first_name: Irfan
  full_name: Essa, Irfan
  last_name: Essa
- first_name: Karen
  full_name: Liu, Karen
  last_name: Liu
- first_name: Peter
  full_name: Mucha, Peter
  last_name: Mucha
- first_name: Jarek
  full_name: Rossignac, Jarek
  last_name: Rossignac
title: Animating physical phenomena with embedded surface meshes
type: dissertation
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2010'
...
---
_id: '3303'
abstract:
- lang: eng
  text: 'Biological traits result in part from interactions between different genetic
    loci. This can lead to sign epistasis, in which a beneficial adaptation involves
    a combination of individually deleterious or neutral mutations; in this case,
    a population must cross a “fitness valley” to adapt. Recombination can assist
    this process by combining mutations from different individuals or retard it by
    breaking up the adaptive combination. Here, we analyze the simplest fitness valley,
    in which an adaptation requires one mutation at each of two loci to provide a
    fitness benefit. We present a theoretical analysis of the effect of recombination
    on the valley-crossing process across the full spectrum of possible parameter
    regimes. We find that low recombination rates can speed up valley crossing relative
    to the asexual case, while higher recombination rates slow down valley crossing,
    with the transition between the two regimes occurring when the recombination rate
    between the loci is approximately equal to the selective advantage provided by
    the adaptation. In large populations, if the recombination rate is high and selection
    against single mutants is substantial, the time to cross the valley grows exponentially
    with population size, effectively meaning that the population cannot acquire the
    adaptation. Recombination at the optimal (low) rate can reduce the valley-crossing
    time by up to several orders of magnitude relative to that in an asexual population. '
acknowledgement: "This work was supported in part by a Robert N. Noyce Stanford Graduate
  Fellowship and European Research Council grant 250152 (to D.B.W.) and by National
  Institutes of Health grant GM 28016 (to M.W.F.).\r\nWe thank Michael Desai for many
  ideas and discussions and are grateful to Joanna Masel and an anonymous reviewer
  for their helpful suggestions. "
article_processing_charge: No
author:
- first_name: Daniel
  full_name: Weissman, Daniel
  id: 2D0CE020-F248-11E8-B48F-1D18A9856A87
  last_name: Weissman
- first_name: Marcus
  full_name: Feldman, Marcus
  last_name: Feldman
- first_name: Daniel
  full_name: Fisher, Daniel
  last_name: Fisher
citation:
  ama: Weissman D, Feldman M, Fisher D. The rate of fitness-valley crossing in sexual
    populations. <i>Genetics</i>. 2010;186(4):1389-1410. doi:<a href="https://doi.org/10.1534/genetics.110.123240">10.1534/genetics.110.123240</a>
  apa: Weissman, D., Feldman, M., &#38; Fisher, D. (2010). The rate of fitness-valley
    crossing in sexual populations. <i>Genetics</i>. Genetics Society of America.
    <a href="https://doi.org/10.1534/genetics.110.123240">https://doi.org/10.1534/genetics.110.123240</a>
  chicago: Weissman, Daniel, Marcus Feldman, and Daniel Fisher. “The Rate of Fitness-Valley
    Crossing in Sexual Populations.” <i>Genetics</i>. Genetics Society of America,
    2010. <a href="https://doi.org/10.1534/genetics.110.123240">https://doi.org/10.1534/genetics.110.123240</a>.
  ieee: D. Weissman, M. Feldman, and D. Fisher, “The rate of fitness-valley crossing
    in sexual populations,” <i>Genetics</i>, vol. 186, no. 4. Genetics Society of
    America, pp. 1389–1410, 2010.
  ista: Weissman D, Feldman M, Fisher D. 2010. The rate of fitness-valley crossing
    in sexual populations. Genetics. 186(4), 1389–1410.
  mla: Weissman, Daniel, et al. “The Rate of Fitness-Valley Crossing in Sexual Populations.”
    <i>Genetics</i>, vol. 186, no. 4, Genetics Society of America, 2010, pp. 1389–410,
    doi:<a href="https://doi.org/10.1534/genetics.110.123240">10.1534/genetics.110.123240</a>.
  short: D. Weissman, M. Feldman, D. Fisher, Genetics 186 (2010) 1389–1410.
corr_author: '1'
date_created: 2018-12-11T12:02:33Z
date_published: 2010-12-01T00:00:00Z
date_updated: 2025-09-30T09:47:59Z
day: '01'
department:
- _id: NiBa
doi: 10.1534/genetics.110.123240
ec_funded: 1
external_id:
  isi:
  - '000285297000025'
intvolume: '       186'
isi: 1
issue: '4'
language:
- iso: eng
main_file_link:
- open_access: '1'
  url: http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2998319/
month: '12'
oa: 1
oa_version: Submitted Version
page: 1389 - 1410
project:
- _id: 25B07788-B435-11E9-9278-68D0E5697425
  call_identifier: FP7
  grant_number: '250152'
  name: Limits to selection in biology and in evolutionary computation
publication: Genetics
publication_status: published
publisher: Genetics Society of America
publist_id: '3337'
quality_controlled: '1'
scopus_import: '1'
status: public
title: The rate of fitness-valley crossing in sexual populations
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 186
year: '2010'
...
---
_id: '3306'
abstract:
- lang: eng
  text: We use methods from combinatorics and algebraic statistics to study analogues
    of birth-and-death processes that have as their state space a finite subset of
    the m-dimensional lattice and for which the m matrices that record the transition
    probabilities in each of the lattice directions commute pairwise. One reason such
    processes are of interest is that the transition matrix is straightforward to
    diagonalize, and hence it is easy to compute n step transition probabilities.
    The set of commuting birth-and-death processes decomposes as a union of toric
    varieties, with the main component being the closure of all processes whose nearest
    neighbor transition probabilities are positive. We exhibit an explicit monomial
    parametrization for this main component, and we explore the boundary components
    using primary decomposition.
acknowledgement: Steven N. Evans was supported in part by NSF Grants DMS-04-05778
  and DMS-09-07630. Bernd Sturmfels was supported in part by NSF Grants DMS-04-56960
  and DMS-07-57236. Caroline Uhler was supported by an International Fulbright Science
  and Technology Fellowship.
author:
- first_name: Steven
  full_name: Evans, Steven N
  last_name: Evans
- first_name: Bernd
  full_name: Sturmfels, Bernd
  last_name: Sturmfels
- first_name: Caroline
  full_name: Caroline Uhler
  id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
  last_name: Uhler
  orcid: 0000-0002-7008-0216
citation:
  ama: Evans S, Sturmfels B, Uhler C. Commuting birth and death processes. <i>The
    Annals of Applied Probability</i>. 2010;20:238-266. doi:<a href="https://doi.org/10.1214/09-AAP615">10.1214/09-AAP615</a>
  apa: Evans, S., Sturmfels, B., &#38; Uhler, C. (2010). Commuting birth and death
    processes. <i>The Annals of Applied Probability</i>. Institute of Mathematical
    Statistics. <a href="https://doi.org/10.1214/09-AAP615">https://doi.org/10.1214/09-AAP615</a>
  chicago: Evans, Steven, Bernd Sturmfels, and Caroline Uhler. “Commuting Birth and
    Death Processes.” <i>The Annals of Applied Probability</i>. Institute of Mathematical
    Statistics, 2010. <a href="https://doi.org/10.1214/09-AAP615">https://doi.org/10.1214/09-AAP615</a>.
  ieee: S. Evans, B. Sturmfels, and C. Uhler, “Commuting birth and death processes,”
    <i>The Annals of Applied Probability</i>, vol. 20. Institute of Mathematical Statistics,
    pp. 238–266, 2010.
  ista: Evans S, Sturmfels B, Uhler C. 2010. Commuting birth and death processes.
    The Annals of Applied Probability. 20, 238–266.
  mla: Evans, Steven, et al. “Commuting Birth and Death Processes.” <i>The Annals
    of Applied Probability</i>, vol. 20, Institute of Mathematical Statistics, 2010,
    pp. 238–66, doi:<a href="https://doi.org/10.1214/09-AAP615">10.1214/09-AAP615</a>.
  short: S. Evans, B. Sturmfels, C. Uhler, The Annals of Applied Probability 20 (2010)
    238–266.
date_created: 2018-12-11T12:02:35Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2021-01-12T07:42:32Z
day: '01'
doi: 10.1214/09-AAP615
extern: 1
intvolume: '        20'
main_file_link:
- open_access: '1'
  url: http://arxiv.org/abs/0812.2724
month: '01'
oa: 1
page: 238 - 266
publication: The Annals of Applied Probability
publication_status: published
publisher: Institute of Mathematical Statistics
publist_id: '3334'
quality_controlled: 0
status: public
title: Commuting birth and death processes
type: journal_article
volume: 20
year: '2010'
...
---
_id: '3308'
abstract:
- lang: eng
  text: We study multivariate normal models that are described by linear constraints
    on the inverse of the covariance matrix. Maximum likelihood estimation for such
    models leads to the problem of maximizing the determinant function over a spectrahedron,
    and to the problem of characterizing the image of the positive definite cone under
    an arbitrary linear projection. These problems at the interface of statistics
    and optimization are here examined from the perspective of convex algebraic geometry.
acknowledgement: B. Sturmfels is supported in part by NSF grants DMS-0456960 and DMS-0757236.
  C. Uhler is supported by an International Fulbright Science and Technology Fellowship.
author:
- first_name: Bernd
  full_name: Sturmfels, Bernd
  last_name: Sturmfels
- first_name: Caroline
  full_name: Caroline Uhler
  id: 49ADD78E-F248-11E8-B48F-1D18A9856A87
  last_name: Uhler
  orcid: 0000-0002-7008-0216
citation:
  ama: Sturmfels B, Uhler C. Multivariate Gaussians, semidefinite matrix completion,
    and convex algebraic geometry. <i>Annals of the Institute of Statistical Mathematics</i>.
    2010;62(4):603-638. doi:<a href="https://doi.org/10.1007/s10463-010-0295-4">10.1007/s10463-010-0295-4</a>
  apa: Sturmfels, B., &#38; Uhler, C. (2010). Multivariate Gaussians, semidefinite
    matrix completion, and convex algebraic geometry. <i>Annals of the Institute of
    Statistical Mathematics</i>. Springer. <a href="https://doi.org/10.1007/s10463-010-0295-4">https://doi.org/10.1007/s10463-010-0295-4</a>
  chicago: Sturmfels, Bernd, and Caroline Uhler. “Multivariate Gaussians, Semidefinite
    Matrix Completion, and Convex Algebraic Geometry.” <i>Annals of the Institute
    of Statistical Mathematics</i>. Springer, 2010. <a href="https://doi.org/10.1007/s10463-010-0295-4">https://doi.org/10.1007/s10463-010-0295-4</a>.
  ieee: B. Sturmfels and C. Uhler, “Multivariate Gaussians, semidefinite matrix completion,
    and convex algebraic geometry,” <i>Annals of the Institute of Statistical Mathematics</i>,
    vol. 62, no. 4. Springer, pp. 603–638, 2010.
  ista: Sturmfels B, Uhler C. 2010. Multivariate Gaussians, semidefinite matrix completion,
    and convex algebraic geometry. Annals of the Institute of Statistical Mathematics.
    62(4), 603–638.
  mla: Sturmfels, Bernd, and Caroline Uhler. “Multivariate Gaussians, Semidefinite
    Matrix Completion, and Convex Algebraic Geometry.” <i>Annals of the Institute
    of Statistical Mathematics</i>, vol. 62, no. 4, Springer, 2010, pp. 603–38, doi:<a
    href="https://doi.org/10.1007/s10463-010-0295-4">10.1007/s10463-010-0295-4</a>.
  short: B. Sturmfels, C. Uhler, Annals of the Institute of Statistical Mathematics
    62 (2010) 603–638.
date_created: 2018-12-11T12:02:35Z
date_published: 2010-08-01T00:00:00Z
date_updated: 2021-01-12T07:42:33Z
day: '01'
doi: 10.1007/s10463-010-0295-4
extern: 1
intvolume: '        62'
issue: '4'
main_file_link:
- open_access: '1'
  url: http://arxiv.org/abs/0906.3529
month: '08'
oa: 1
page: 603 - 638
publication: Annals of the Institute of Statistical Mathematics
publication_status: published
publisher: Springer
publist_id: '3332'
quality_controlled: 0
status: public
title: Multivariate Gaussians, semidefinite matrix completion, and convex algebraic
  geometry
type: journal_article
volume: 62
year: '2010'
...
---
_id: '3402'
abstract:
- lang: eng
  text: Model checking transactional memories (TMs) is difficult because of the unbounded
    number, length, and delay of concurrent transactions, as well as the unbounded
    size of the memory. We show that, under certain conditions satisfied by most TMs
    we know of, the model checking problem can be reduced to a finite-state problem,
    and we illustrate the use of the method by proving the correctness of several
    TMs, including two-phase locking, DSTM, and TL2. The safety properties we consider
    include strict serializability and opacity; the liveness properties include obstruction
    freedom, livelock freedom, and wait freedom. Our main contribution lies in the
    structure of the proofs, which are largely automated and not restricted to the
    TMs mentioned above. In a first step we show that every TM that enjoys certain
    structural properties either violates a requirement on some program with two threads
    and two shared variables, or satisfies the requirement on all programs. In the
    second step, we use a model checker to prove the requirement for the TM applied
    to a most general program with two threads and two variables. In the safety case,
    the model checker checks language inclusion between two finite-state transition
    systems, a nondeterministic transition system representing the given TM applied
    to a most general program, and a deterministic transition system representing
    a most liberal safe TM applied to the same program. The given TM transition system
    is nondeterministic because a TM can be used with different contention managers,
    which resolve conflicts differently. In the liveness case, the model checker analyzes
    fairness conditions on the given TM transition system.
acknowledgement: This research was supported by the Swiss National Science Foundation.
  This paper is an extended and revised version of our previous work on model checking
  transactional memories.
author:
- first_name: Rachid
  full_name: Guerraoui, Rachid
  last_name: Guerraoui
- first_name: Thomas A
  full_name: Thomas Henzinger
  id: 40876CD8-F248-11E8-B48F-1D18A9856A87
  last_name: Henzinger
  orcid: 0000−0002−2985−7724
- first_name: Vasu
  full_name: Vasu Singh
  id: 4DAE2708-F248-11E8-B48F-1D18A9856A87
  last_name: Singh
citation:
  ama: Guerraoui R, Henzinger TA, Singh V. Model checking transactional memories.
    <i>Distributed Computing</i>. 2010;22(3):129-145. doi:<a href="https://doi.org/10.1007/s00446-009-0092-6">10.1007/s00446-009-0092-6</a>
  apa: Guerraoui, R., Henzinger, T. A., &#38; Singh, V. (2010). Model checking transactional
    memories. <i>Distributed Computing</i>. Springer. <a href="https://doi.org/10.1007/s00446-009-0092-6">https://doi.org/10.1007/s00446-009-0092-6</a>
  chicago: Guerraoui, Rachid, Thomas A Henzinger, and Vasu Singh. “Model Checking
    Transactional Memories.” <i>Distributed Computing</i>. Springer, 2010. <a href="https://doi.org/10.1007/s00446-009-0092-6">https://doi.org/10.1007/s00446-009-0092-6</a>.
  ieee: R. Guerraoui, T. A. Henzinger, and V. Singh, “Model checking transactional
    memories,” <i>Distributed Computing</i>, vol. 22, no. 3. Springer, pp. 129–145,
    2010.
  ista: Guerraoui R, Henzinger TA, Singh V. 2010. Model checking transactional memories.
    Distributed Computing. 22(3), 129–145.
  mla: Guerraoui, Rachid, et al. “Model Checking Transactional Memories.” <i>Distributed
    Computing</i>, vol. 22, no. 3, Springer, 2010, pp. 129–45, doi:<a href="https://doi.org/10.1007/s00446-009-0092-6">10.1007/s00446-009-0092-6</a>.
  short: R. Guerraoui, T.A. Henzinger, V. Singh, Distributed Computing 22 (2010) 129–145.
date_created: 2018-12-11T12:03:08Z
date_published: 2010-03-01T00:00:00Z
date_updated: 2021-01-12T07:43:14Z
day: '01'
doi: 10.1007/s00446-009-0092-6
extern: 1
intvolume: '        22'
issue: '3'
main_file_link:
- open_access: '0'
  url: http://infoscience.epfl.ch/record/117513/files/PLDI_paper.pdf
month: '03'
page: 129 - 145
publication: Distributed Computing
publication_status: published
publisher: Springer
publist_id: '3000'
pubrep_id: '74'
quality_controlled: 0
status: public
title: Model checking transactional memories
type: journal_article
volume: 22
year: '2010'
...
---
_id: '3403'
abstract:
- lang: eng
  text: Rate remapping is a conjunctive code that potentially enables hippocampal
    place cells to jointly represent spatial and nonspatial information. In this issue
    of Neuron, Rennó-Costa et al. introduce a theoretical model wherein the convergence
    of the medial and lateral entorhinal excitatory inputs, combined with local inhibition,
    explains hippocampal rate remapping. © 2010 Elsevier Inc.
author:
- first_name: Barty
  full_name: Pleydell-Bouverie, Barty
  last_name: Pleydell Bouverie
- first_name: Jozsef L
  full_name: Jozsef Csicsvari
  id: 3FA14672-F248-11E8-B48F-1D18A9856A87
  last_name: Csicsvari
  orcid: 0000-0002-5193-4036
citation:
  ama: 'Pleydell Bouverie B, Csicsvari JL. Rate remapping: When the code goes beyond
    space (preview). <i>Neuron</i>. 2010;68(6):1015-1016. doi:<a href="https://doi.org/10.1016/j.neuron.2010.12.011">10.1016/j.neuron.2010.12.011</a>'
  apa: 'Pleydell Bouverie, B., &#38; Csicsvari, J. L. (2010). Rate remapping: When
    the code goes beyond space (preview). <i>Neuron</i>. Elsevier. <a href="https://doi.org/10.1016/j.neuron.2010.12.011">https://doi.org/10.1016/j.neuron.2010.12.011</a>'
  chicago: 'Pleydell Bouverie, Barty, and Jozsef L Csicsvari. “Rate Remapping: When
    the Code Goes beyond Space (Preview).” <i>Neuron</i>. Elsevier, 2010. <a href="https://doi.org/10.1016/j.neuron.2010.12.011">https://doi.org/10.1016/j.neuron.2010.12.011</a>.'
  ieee: 'B. Pleydell Bouverie and J. L. Csicsvari, “Rate remapping: When the code
    goes beyond space (preview),” <i>Neuron</i>, vol. 68, no. 6. Elsevier, pp. 1015–1016,
    2010.'
  ista: 'Pleydell Bouverie B, Csicsvari JL. 2010. Rate remapping: When the code goes
    beyond space (preview). Neuron. 68(6), 1015–1016.'
  mla: 'Pleydell Bouverie, Barty, and Jozsef L. Csicsvari. “Rate Remapping: When the
    Code Goes beyond Space (Preview).” <i>Neuron</i>, vol. 68, no. 6, Elsevier, 2010,
    pp. 1015–16, doi:<a href="https://doi.org/10.1016/j.neuron.2010.12.011">10.1016/j.neuron.2010.12.011</a>.'
  short: B. Pleydell Bouverie, J.L. Csicsvari, Neuron 68 (2010) 1015–1016.
date_created: 2018-12-11T12:03:08Z
date_published: 2010-12-22T00:00:00Z
date_updated: 2019-05-10T12:19:51Z
day: '22'
doi: 10.1016/j.neuron.2010.12.011
extern: 1
intvolume: '        68'
issue: '6'
month: '12'
page: 1015 - 1016
publication: Neuron
publication_status: published
publisher: Elsevier
publist_id: '2999'
quality_controlled: 0
status: public
title: 'Rate remapping: When the code goes beyond space (preview)'
type: review
volume: 68
year: '2010'
...
---
_id: '3406'
abstract:
- lang: eng
  text: The impact of structural biology on the design of ligands (agonists, antagonists
    and modulators) for ionotropic glutamate receptors is reviewed.
author:
- first_name: Philipp
  full_name: Stawski, Philipp
  last_name: Stawski
- first_name: Harald L
  full_name: Harald Janovjak
  id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
  last_name: Janovjak
  orcid: 0000-0002-8023-9315
- first_name: Dirk
  full_name: Trauner, Dirk
  last_name: Trauner
citation:
  ama: 'Stawski P, Janovjak HL, Trauner D. Pharmacology of ionotropic glutamate receptors:
    a structural perspective. <i>Bioorganic and Medicinal Chemistry</i>. 2010;18(22):7759-7772.
    doi:<a href="https://doi.org/10.1016/j.bmc.2010.09.012">10.1016/j.bmc.2010.09.012</a>'
  apa: 'Stawski, P., Janovjak, H. L., &#38; Trauner, D. (2010). Pharmacology of ionotropic
    glutamate receptors: a structural perspective. <i>Bioorganic and Medicinal Chemistry</i>.
    Elsevier. <a href="https://doi.org/10.1016/j.bmc.2010.09.012">https://doi.org/10.1016/j.bmc.2010.09.012</a>'
  chicago: 'Stawski, Philipp, Harald L Janovjak, and Dirk Trauner. “Pharmacology of
    Ionotropic Glutamate Receptors: A Structural Perspective.” <i>Bioorganic and Medicinal
    Chemistry</i>. Elsevier, 2010. <a href="https://doi.org/10.1016/j.bmc.2010.09.012">https://doi.org/10.1016/j.bmc.2010.09.012</a>.'
  ieee: 'P. Stawski, H. L. Janovjak, and D. Trauner, “Pharmacology of ionotropic glutamate
    receptors: a structural perspective,” <i>Bioorganic and Medicinal Chemistry</i>,
    vol. 18, no. 22. Elsevier, pp. 7759–7772, 2010.'
  ista: 'Stawski P, Janovjak HL, Trauner D. 2010. Pharmacology of ionotropic glutamate
    receptors: a structural perspective. Bioorganic and Medicinal Chemistry. 18(22),
    7759–7772.'
  mla: 'Stawski, Philipp, et al. “Pharmacology of Ionotropic Glutamate Receptors:
    A Structural Perspective.” <i>Bioorganic and Medicinal Chemistry</i>, vol. 18,
    no. 22, Elsevier, 2010, pp. 7759–72, doi:<a href="https://doi.org/10.1016/j.bmc.2010.09.012">10.1016/j.bmc.2010.09.012</a>.'
  short: P. Stawski, H.L. Janovjak, D. Trauner, Bioorganic and Medicinal Chemistry
    18 (2010) 7759–7772.
date_created: 2018-12-11T12:03:10Z
date_published: 2010-11-15T00:00:00Z
date_updated: 2019-04-26T07:22:27Z
day: '15'
doi: 10.1016/j.bmc.2010.09.012
extern: 1
intvolume: '        18'
issue: '22'
month: '11'
page: 7759 - 7772
publication: Bioorganic and Medicinal Chemistry
publication_status: published
publisher: Elsevier
publist_id: '2996'
quality_controlled: 0
status: public
title: 'Pharmacology of ionotropic glutamate receptors: a structural perspective'
type: review
volume: 18
year: '2010'
...
---
_id: '3407'
abstract:
- lang: eng
  text: Genetically targeted light-activated ion channels and pumps make it possible
    to determine the role of specific neurons in neuronal circuits, information processing
    and behavior. We developed a K+-selective ionotropic glutamate receptor that reversibly
    inhibits neuronal activity in response to light in dissociated neurons and brain
    slice and also reversibly suppresses behavior in zebrafish. The receptor is a
    chimera of the pore region of a K+-selective bacterial glutamate receptor and
    the ligand-binding domain of a light-gated mammalian kainate receptor. This hyperpolarizing
    light-gated channel, HyLighter, is turned on by a brief light pulse at one wavelength
    and turned off by a pulse at a second wavelength. The control is obtained at moderate
    intensity. After optical activation, the photocurrent and optical silencing of
    activity persists in the dark for extended periods. The low light requirement
    and bi-stability of HyLighter represent advantages for the dissection of neural
    circuitry.
author:
- first_name: Harald L
  full_name: Harald Janovjak
  id: 33BA6C30-F248-11E8-B48F-1D18A9856A87
  last_name: Janovjak
  orcid: 0000-0002-8023-9315
- first_name: Stephanie
  full_name: Szobota, Stephanie
  last_name: Szobota
- first_name: Claire
  full_name: Wyart, Claire
  last_name: Wyart
- first_name: Dirk
  full_name: Trauner, Dirk
  last_name: Trauner
- first_name: Ehud
  full_name: Isacoff, Ehud Y
  last_name: Isacoff
citation:
  ama: Janovjak HL, Szobota S, Wyart C, Trauner D, Isacoff E. A light-gated, potassium-selective
    glutamate receptor for the optical inhibition of neuronal firing. <i>Nature Neuroscience</i>.
    2010;13:1027-1032. doi:<a href="https://doi.org/10.1038/nn.2589">10.1038/nn.2589</a>
  apa: Janovjak, H. L., Szobota, S., Wyart, C., Trauner, D., &#38; Isacoff, E. (2010).
    A light-gated, potassium-selective glutamate receptor for the optical inhibition
    of neuronal firing. <i>Nature Neuroscience</i>. Nature Publishing Group. <a href="https://doi.org/10.1038/nn.2589">https://doi.org/10.1038/nn.2589</a>
  chicago: Janovjak, Harald L, Stephanie Szobota, Claire Wyart, Dirk Trauner, and
    Ehud Isacoff. “A Light-Gated, Potassium-Selective Glutamate Receptor for the Optical
    Inhibition of Neuronal Firing.” <i>Nature Neuroscience</i>. Nature Publishing
    Group, 2010. <a href="https://doi.org/10.1038/nn.2589">https://doi.org/10.1038/nn.2589</a>.
  ieee: H. L. Janovjak, S. Szobota, C. Wyart, D. Trauner, and E. Isacoff, “A light-gated,
    potassium-selective glutamate receptor for the optical inhibition of neuronal
    firing,” <i>Nature Neuroscience</i>, vol. 13. Nature Publishing Group, pp. 1027–1032,
    2010.
  ista: Janovjak HL, Szobota S, Wyart C, Trauner D, Isacoff E. 2010. A light-gated,
    potassium-selective glutamate receptor for the optical inhibition of neuronal
    firing. Nature Neuroscience. 13, 1027–1032.
  mla: Janovjak, Harald L., et al. “A Light-Gated, Potassium-Selective Glutamate Receptor
    for the Optical Inhibition of Neuronal Firing.” <i>Nature Neuroscience</i>, vol.
    13, Nature Publishing Group, 2010, pp. 1027–32, doi:<a href="https://doi.org/10.1038/nn.2589">10.1038/nn.2589</a>.
  short: H.L. Janovjak, S. Szobota, C. Wyart, D. Trauner, E. Isacoff, Nature Neuroscience
    13 (2010) 1027–1032.
date_created: 2018-12-11T12:03:10Z
date_published: 2010-06-27T00:00:00Z
date_updated: 2021-01-12T07:43:16Z
day: '27'
doi: 10.1038/nn.2589
extern: 1
intvolume: '        13'
month: '06'
page: 1027 - 1032
publication: Nature Neuroscience
publication_status: published
publisher: Nature Publishing Group
publist_id: '2995'
quality_controlled: 0
status: public
title: A light-gated, potassium-selective glutamate receptor for the optical inhibition
  of neuronal firing
type: journal_article
volume: 13
year: '2010'
...
---
_id: '1465'
abstract:
- lang: eng
  text: We prove a generating function formula for the Betti numbers of Nakajima quiver
    varieties. We prove that it is a q-deformation of the Weyl-Kac character formula.
    In particular this implies that the constant term of the polynomial counting the
    number of absolutely indecomposable representations of a quiver equals the multiplicity
    of a certain weight in the corresponding Kac-Moody algebra, which was conjectured
    by Kac in 1982.
acknowledgement: This work has been supported by a Royal Society University Research
  Fellowship, NSF grants DMS-0305505 and DMS-0604775 and an Alfred Sloan Fellowship
  2005-2007.
author:
- first_name: Tamas
  full_name: Tamas Hausel
  id: 4A0666D8-F248-11E8-B48F-1D18A9856A87
  last_name: Hausel
citation:
  ama: Hausel T. Kac’s conjecture from Nakajima quiver varieties. <i>Inventiones Mathematicae</i>.
    2010;181(1):21-37. doi:<a href="https://doi.org/10.1007/s00222-010-0241-3">10.1007/s00222-010-0241-3</a>
  apa: Hausel, T. (2010). Kac’s conjecture from Nakajima quiver varieties. <i>Inventiones
    Mathematicae</i>. Springer. <a href="https://doi.org/10.1007/s00222-010-0241-3">https://doi.org/10.1007/s00222-010-0241-3</a>
  chicago: Hausel, Tamás. “Kac’s Conjecture from Nakajima Quiver Varieties.” <i>Inventiones
    Mathematicae</i>. Springer, 2010. <a href="https://doi.org/10.1007/s00222-010-0241-3">https://doi.org/10.1007/s00222-010-0241-3</a>.
  ieee: T. Hausel, “Kac’s conjecture from Nakajima quiver varieties,” <i>Inventiones
    Mathematicae</i>, vol. 181, no. 1. Springer, pp. 21–37, 2010.
  ista: Hausel T. 2010. Kac’s conjecture from Nakajima quiver varieties. Inventiones
    Mathematicae. 181(1), 21–37.
  mla: Hausel, Tamás. “Kac’s Conjecture from Nakajima Quiver Varieties.” <i>Inventiones
    Mathematicae</i>, vol. 181, no. 1, Springer, 2010, pp. 21–37, doi:<a href="https://doi.org/10.1007/s00222-010-0241-3">10.1007/s00222-010-0241-3</a>.
  short: T. Hausel, Inventiones Mathematicae 181 (2010) 21–37.
date_created: 2018-12-11T11:52:11Z
date_published: 2010-07-01T00:00:00Z
date_updated: 2021-01-12T06:50:56Z
day: '01'
doi: 10.1007/s00222-010-0241-3
extern: 1
intvolume: '       181'
issue: '1'
main_file_link:
- open_access: '1'
  url: http://arxiv.org/abs/0811.1569
month: '07'
oa: 1
page: 21 - 37
publication: Inventiones Mathematicae
publication_status: published
publisher: Springer
publist_id: '5730'
quality_controlled: 0
status: public
title: Kac's conjecture from Nakajima quiver varieties
type: journal_article
volume: 181
year: '2010'
...
---
_id: '1466'
abstract:
- lang: eng
  text: In Hausel et al. (2008) [10] we presented a conjecture generalizing the Cauchy
    formula for Macdonald polynomial. This conjecture encodes the mixed Hodge polynomials
    of the character varieties of representations of the fundamental group of a punctured
    Riemann surface of genus g. We proved several results which support this conjecture.
    Here we announce new results which are consequences of those in Hausel et al.
    (2008) [10].
author:
- first_name: Tamas
  full_name: Tamas Hausel
  id: 4A0666D8-F248-11E8-B48F-1D18A9856A87
  last_name: Hausel
- first_name: Emmanuel
  full_name: Letellier, Emmanuel
  last_name: Letellier
- first_name: Fernando
  full_name: Rodríguez Villegas, Fernando
  last_name: Rodríguez Villegas
citation:
  ama: Hausel T, Letellier E, Rodríguez Villegas F. Topology of character varieties
    and representations of quivers. <i>Comptes Rendus Mathematique</i>. 2010;348(3-4):131-135.
    doi:<a href="https://doi.org/10.1016/j.crma.2010.01.025">10.1016/j.crma.2010.01.025</a>
  apa: Hausel, T., Letellier, E., &#38; Rodríguez Villegas, F. (2010). Topology of
    character varieties and representations of quivers. <i>Comptes Rendus Mathematique</i>.
    Elsevier. <a href="https://doi.org/10.1016/j.crma.2010.01.025">https://doi.org/10.1016/j.crma.2010.01.025</a>
  chicago: Hausel, Tamás, Emmanuel Letellier, and Fernando Rodríguez Villegas. “Topology
    of Character Varieties and Representations of Quivers.” <i>Comptes Rendus Mathematique</i>.
    Elsevier, 2010. <a href="https://doi.org/10.1016/j.crma.2010.01.025">https://doi.org/10.1016/j.crma.2010.01.025</a>.
  ieee: T. Hausel, E. Letellier, and F. Rodríguez Villegas, “Topology of character
    varieties and representations of quivers,” <i>Comptes Rendus Mathematique</i>,
    vol. 348, no. 3–4. Elsevier, pp. 131–135, 2010.
  ista: Hausel T, Letellier E, Rodríguez Villegas F. 2010. Topology of character varieties
    and representations of quivers. Comptes Rendus Mathematique. 348(3–4), 131–135.
  mla: Hausel, Tamás, et al. “Topology of Character Varieties and Representations
    of Quivers.” <i>Comptes Rendus Mathematique</i>, vol. 348, no. 3–4, Elsevier,
    2010, pp. 131–35, doi:<a href="https://doi.org/10.1016/j.crma.2010.01.025">10.1016/j.crma.2010.01.025</a>.
  short: T. Hausel, E. Letellier, F. Rodríguez Villegas, Comptes Rendus Mathematique
    348 (2010) 131–135.
date_created: 2018-12-11T11:52:11Z
date_published: 2010-02-01T00:00:00Z
date_updated: 2021-01-12T06:50:56Z
day: '01'
doi: 10.1016/j.crma.2010.01.025
extern: 1
intvolume: '       348'
issue: 3-4
main_file_link:
- open_access: '1'
  url: http://arxiv.org/abs/0905.3491
month: '02'
oa: 1
page: 131 - 135
publication: Comptes Rendus Mathematique
publication_status: published
publisher: Elsevier
publist_id: '5731'
quality_controlled: 0
status: public
title: Topology of character varieties and representations of quivers
type: journal_article
volume: 348
year: '2010'
...
---
_id: '1468'
abstract:
- lang: eng
  text: 'This chapter surveys the motivations, related results, and progress made
    towards the following problem, raised by Hitchin in 1995: What is the space of
    L2 harmonic forms on the moduli space of Higgs bundles on a Riemann surface?'
author:
- first_name: Tamas
  full_name: Tamas Hausel
  id: 4A0666D8-F248-11E8-B48F-1D18A9856A87
  last_name: Hausel
citation:
  ama: 'Hausel T. S-Duality in HyperkäHler Hodge Theory. In: <i>The Many Facets of
    Geometry: A Tribute to Nigel Hitchin</i>. Oxford University Press; 2010. doi:<a
    href="https://doi.org/10.1093/acprof:oso/9780199534920.003.0016">10.1093/acprof:oso/9780199534920.003.0016</a>'
  apa: 'Hausel, T. (2010). S-Duality in HyperkäHler Hodge Theory. In <i>The Many Facets
    of Geometry: A Tribute to Nigel Hitchin</i>. Oxford University Press. <a href="https://doi.org/10.1093/acprof:oso/9780199534920.003.0016">https://doi.org/10.1093/acprof:oso/9780199534920.003.0016</a>'
  chicago: 'Hausel, Tamás. “S-Duality in HyperkäHler Hodge Theory.” In <i>The Many
    Facets of Geometry: A Tribute to Nigel Hitchin</i>. Oxford University Press, 2010.
    <a href="https://doi.org/10.1093/acprof:oso/9780199534920.003.0016">https://doi.org/10.1093/acprof:oso/9780199534920.003.0016</a>.'
  ieee: 'T. Hausel, “S-Duality in HyperkäHler Hodge Theory,” in <i>The Many Facets
    of Geometry: A Tribute to Nigel Hitchin</i>, Oxford University Press, 2010.'
  ista: 'Hausel T. 2010.S-Duality in HyperkäHler Hodge Theory. In: The Many Facets
    of Geometry: A Tribute to Nigel Hitchin. .'
  mla: 'Hausel, Tamás. “S-Duality in HyperkäHler Hodge Theory.” <i>The Many Facets
    of Geometry: A Tribute to Nigel Hitchin</i>, Oxford University Press, 2010, doi:<a
    href="https://doi.org/10.1093/acprof:oso/9780199534920.003.0016">10.1093/acprof:oso/9780199534920.003.0016</a>.'
  short: 'T. Hausel, in:, The Many Facets of Geometry: A Tribute to Nigel Hitchin,
    Oxford University Press, 2010.'
date_created: 2018-12-11T11:52:12Z
date_published: 2010-09-01T00:00:00Z
date_updated: 2021-01-12T06:50:57Z
day: '01'
doi: 10.1093/acprof:oso/9780199534920.003.0016
extern: 1
main_file_link:
- open_access: '1'
  url: http://arxiv.org/abs/0709.0504
month: '09'
oa: 1
publication: 'The Many Facets of Geometry: A Tribute to Nigel Hitchin'
publication_status: published
publisher: Oxford University Press
publist_id: '5729'
quality_controlled: 0
status: public
title: S-Duality in HyperkäHler Hodge Theory
type: book_chapter
year: '2010'
...
---
_id: '1800'
abstract:
- lang: eng
  text: Retinitis pigmentosa refers to a diverse group of hereditary diseases that
    lead to incurable blindness, affecting two million people worldwide. As a common
    pathology, rod photoreceptors die early, whereas light-insensitive, morphologically
    altered cone photoreceptors persist longer. It is unknown if these cones are accessible
    for therapeutic intervention. Here, we show that expression of archaebacterial
    halorhodopsin in light-insensitive cones can substitute for the native phototransduction
    cascade and restore light sensitivity in mouse models of retinitis pigmentosa.
    Resensitized photoreceptors activate all retinal cone pathways, drive sophisticated
    retinal circuit functions (including directional selectivity), activate cortical
    circuits, and mediate visually guided behaviors. Using human ex vivo retinas,
    we show that halorhodopsin can reactivate light-insensitive human photoreceptors.
    Finally, we identified blind patients with persisting, light-insensitive cones
    for potential halorhodopsin-based therapy.
acknowledgement: This study was supported by Friedrich Miescher Institute funds; a
  U.S. Office of Naval Research Naval International Cooperative Opportunities in Science
  and Technology Program grant; a Marie Curie Excellence grant and a European Union
  (EU) HEALTH-F2-223156 grant to B.R.; a grant from the EU (RETICIRC) to B.R. and
  S.P.; grants from the Agence nationale de la recherche (MEDINAS, RETINE) to S.P.;
  a Center Grant from Foundation Fighting Blindness (U.S.) to S.M.-S. and J.A.S.;
  grants from the Swiss National Science Foundation and the EU to D.T.; a grant from
  the EU (TREATRUSH) to J.A.S., S.P., and B.R.; a Marie Curie Postdoctoral Fellowship
  to D.B.; and a National Centers of Competence in Research Frontiers in Genetics
  fellowship to V.B. and A.C.G. The Ocular Genetics Unit at Trinity College Dublin
  is supported by Science Foundation Ireland
author:
- first_name: Volker
  full_name: Busskamp, Volker
  last_name: Busskamp
- first_name: Jens
  full_name: Duebel, Jens
  last_name: Duebel
- first_name: Dávid
  full_name: Bálya, Dávid
  last_name: Bálya
- first_name: Mathias
  full_name: Fradot, Mathias
  last_name: Fradot
- first_name: Tim
  full_name: Viney, Tim J
  last_name: Viney
- first_name: Sandra
  full_name: Sandra Siegert
  id: 36ACD32E-F248-11E8-B48F-1D18A9856A87
  last_name: Siegert
  orcid: 0000-0001-8635-0877
- first_name: Anna
  full_name: Groner, Anna C
  last_name: Groner
- first_name: Erik
  full_name: Cabuy, Erik
  last_name: Cabuy
- first_name: Valérie
  full_name: Forster, Valérie
  last_name: Forster
- first_name: Mathias
  full_name: Seeliger, Mathias W
  last_name: Seeliger
- first_name: Martin
  full_name: Biel, Martin
  last_name: Biel
- first_name: Peter
  full_name: Humphries, Peter
  last_name: Humphries
- first_name: Michel
  full_name: Pâques, Michel
  last_name: Pâques
- first_name: Saddek
  full_name: Mohand-Saïd, Saddek
  last_name: Mohand Saïd
- first_name: Didier
  full_name: Trono, Didier
  last_name: Trono
- first_name: Karl
  full_name: Deisseroth, Karl A
  last_name: Deisseroth
- first_name: José
  full_name: Sähel, José A
  last_name: Sähel
- first_name: Serge
  full_name: Picaud, Serge A
  last_name: Picaud
- first_name: Botond
  full_name: Roska, Botond M
  last_name: Roska
citation:
  ama: Busskamp V, Duebel J, Bálya D, et al. Genetic reactivation of cone photoreceptors
    restores visual responses in retinitis pigmentosa. <i>Science</i>. 2010;329(5990):413-417.
    doi:<a href="https://doi.org/10.1126/science.1190897">10.1126/science.1190897</a>
  apa: Busskamp, V., Duebel, J., Bálya, D., Fradot, M., Viney, T., Siegert, S., …
    Roska, B. (2010). Genetic reactivation of cone photoreceptors restores visual
    responses in retinitis pigmentosa. <i>Science</i>. American Association for the
    Advancement of Science. <a href="https://doi.org/10.1126/science.1190897">https://doi.org/10.1126/science.1190897</a>
  chicago: Busskamp, Volker, Jens Duebel, Dávid Bálya, Mathias Fradot, Tim Viney,
    Sandra Siegert, Anna Groner, et al. “Genetic Reactivation of Cone Photoreceptors
    Restores Visual Responses in Retinitis Pigmentosa.” <i>Science</i>. American Association
    for the Advancement of Science, 2010. <a href="https://doi.org/10.1126/science.1190897">https://doi.org/10.1126/science.1190897</a>.
  ieee: V. Busskamp <i>et al.</i>, “Genetic reactivation of cone photoreceptors restores
    visual responses in retinitis pigmentosa,” <i>Science</i>, vol. 329, no. 5990.
    American Association for the Advancement of Science, pp. 413–417, 2010.
  ista: Busskamp V, Duebel J, Bálya D, Fradot M, Viney T, Siegert S, Groner A, Cabuy
    E, Forster V, Seeliger M, Biel M, Humphries P, Pâques M, Mohand Saïd S, Trono
    D, Deisseroth K, Sähel J, Picaud S, Roska B. 2010. Genetic reactivation of cone
    photoreceptors restores visual responses in retinitis pigmentosa. Science. 329(5990),
    413–417.
  mla: Busskamp, Volker, et al. “Genetic Reactivation of Cone Photoreceptors Restores
    Visual Responses in Retinitis Pigmentosa.” <i>Science</i>, vol. 329, no. 5990,
    American Association for the Advancement of Science, 2010, pp. 413–17, doi:<a
    href="https://doi.org/10.1126/science.1190897">10.1126/science.1190897</a>.
  short: V. Busskamp, J. Duebel, D. Bálya, M. Fradot, T. Viney, S. Siegert, A. Groner,
    E. Cabuy, V. Forster, M. Seeliger, M. Biel, P. Humphries, M. Pâques, S. Mohand
    Saïd, D. Trono, K. Deisseroth, J. Sähel, S. Picaud, B. Roska, Science 329 (2010)
    413–417.
date_created: 2018-12-11T11:54:05Z
date_published: 2010-07-23T00:00:00Z
date_updated: 2021-01-12T06:53:17Z
day: '23'
doi: 10.1126/science.1190897
extern: 1
intvolume: '       329'
issue: '5990'
month: '07'
page: 413 - 417
publication: Science
publication_status: published
publisher: American Association for the Advancement of Science
publist_id: '5310'
quality_controlled: 0
status: public
title: Genetic reactivation of cone photoreceptors restores visual responses in retinitis
  pigmentosa
type: journal_article
volume: 329
year: '2010'
...
---
_id: '1300'
abstract:
- lang: eng
  text: 'Motion vision is a major function of all visual systems, yet the underlying
    neural mechanisms and circuits are still elusive. In the lamina, the first optic
    neuropile of Drosophila melanogaster, photoreceptor signals split into five parallel
    pathways, L1-L5. Here we examine how these pathways contribute to visual motion
    detection by combining genetic block and reconstitution of neural activity in
    different lamina cell types with whole-cell recordings from downstream motion-sensitive
    neurons. We find reduced responses to moving gratings if L1 or L2 is blocked;
    however, reconstitution of photoreceptor input to only L1 or L2 results in wild-type
    responses. Thus, the first experiment indicates the necessity of both pathways,
    whereas the second indicates sufficiency of each single pathway. This contradiction
    can be explained by electrical coupling between L1 and L2, allowing for activation
    of both pathways even when only one of them receives photoreceptor input. A fundamental
    difference between the L1 pathway and the L2 pathway is uncovered when blocking
    L1 or L2 output while presenting moving edges of positive (ON) or negative (OFF)
    contrast polarity: blocking L1 eliminates the response to moving ON edges, whereas
    blocking L2 eliminates the response to moving OFF edges. Thus, similar to the
    segregation of photoreceptor signals in ON and OFF bipolar cell pathways in the
    vertebrate retina, photoreceptor signals segregate into ON-L1 and OFF-L2 channels
    in the lamina of Drosophila.'
author:
- first_name: Maximilian A
  full_name: Maximilian Jösch
  id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
  last_name: Jösch
  orcid: 0000-0002-3937-1330
- first_name: Bettina
  full_name: Schnell, Bettina
  last_name: Schnell
- first_name: Shamprasad
  full_name: Raghu, Shamprasad V
  last_name: Raghu
- first_name: Dierk
  full_name: Reiff, Dierk F
  last_name: Reiff
- first_name: Alexander
  full_name: Borst, Alexander
  last_name: Borst
citation:
  ama: Jösch MA, Schnell B, Raghu S, Reiff D, Borst A. ON and off pathways in Drosophila
    motion vision. <i>Nature</i>. 2010;468(7321):300-304. doi:<a href="https://doi.org/10.1038/nature09545">10.1038/nature09545</a>
  apa: Jösch, M. A., Schnell, B., Raghu, S., Reiff, D., &#38; Borst, A. (2010). ON
    and off pathways in Drosophila motion vision. <i>Nature</i>. Nature Publishing
    Group. <a href="https://doi.org/10.1038/nature09545">https://doi.org/10.1038/nature09545</a>
  chicago: Jösch, Maximilian A, Bettina Schnell, Shamprasad Raghu, Dierk Reiff, and
    Alexander Borst. “ON and off Pathways in Drosophila Motion Vision.” <i>Nature</i>.
    Nature Publishing Group, 2010. <a href="https://doi.org/10.1038/nature09545">https://doi.org/10.1038/nature09545</a>.
  ieee: M. A. Jösch, B. Schnell, S. Raghu, D. Reiff, and A. Borst, “ON and off pathways
    in Drosophila motion vision,” <i>Nature</i>, vol. 468, no. 7321. Nature Publishing
    Group, pp. 300–304, 2010.
  ista: Jösch MA, Schnell B, Raghu S, Reiff D, Borst A. 2010. ON and off pathways
    in Drosophila motion vision. Nature. 468(7321), 300–304.
  mla: Jösch, Maximilian A., et al. “ON and off Pathways in Drosophila Motion Vision.”
    <i>Nature</i>, vol. 468, no. 7321, Nature Publishing Group, 2010, pp. 300–04,
    doi:<a href="https://doi.org/10.1038/nature09545">10.1038/nature09545</a>.
  short: M.A. Jösch, B. Schnell, S. Raghu, D. Reiff, A. Borst, Nature 468 (2010) 300–304.
date_created: 2018-12-11T11:51:14Z
date_published: 2010-11-11T00:00:00Z
date_updated: 2021-01-12T06:49:44Z
day: '11'
doi: 10.1038/nature09545
extern: 1
intvolume: '       468'
issue: '7321'
month: '11'
page: 300 - 304
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '5970'
quality_controlled: 0
status: public
title: ON and off pathways in Drosophila motion vision
type: journal_article
volume: 468
year: '2010'
...
---
_id: '1301'
abstract:
- lang: eng
  text: Motion vision is essential for navigating through the environment. Due to
    its genetic amenability, the fruit fly Drosophila has been serving for a lengthy
    period as a model organism for studying optomotor behavior as elicited by large-field
    horizontal motion. However, the neurons underlying the control of this behavior
    have not been studied in Drosophila so far. Here we report the first whole cell
    recordings from three cells of the horizontal system (HSN, HSE, and HSS) in the
    lobula plate of Drosophila. All three HS cells are tuned to large-field horizontal
    motion in a direction-selective way; they become excited by front-to-back motion
    and inhibited by back-to-front motion in the ipsilateral field of view. The response
    properties of HS cells such as contrast and velocity dependence are in accordance
    with the correlation-type model of motion detection. Neurobiotin injection suggests
    extensive coupling among ipsilateral HS cells and additional coupling to tangential
    cells that have their dendrites in the contralateral hemisphere of the brain.
    This connectivity scheme accounts for the complex layout of their receptive fields
    and explains their sensitivity both to ipsilateral and to contralateral motion.
    Thus the main response properties of Drosophila HS cells are strikingly similar
    to the responses of their counterparts in the blowfly Calliphora, although we
    found substantial differences with respect to their dendritic structure and connectivity.
    This long-awaited functional characterization of HS cells in Drosophila provides
    the basis for the future dissection of optomotor behavior and the underlying neural
    circuitry by combining genetics, physiology, and behavior.
acknowledgement: This work was supported by the Max-Planck-Society and by a Human
  Frontier Science Program grant to K. Ito, A. Borst, and B. Nelson.
article_processing_charge: No
article_type: original
author:
- first_name: Bettina
  full_name: Schnell, Bettina
  last_name: Schnell
- first_name: Maximilian A
  full_name: Jösch, Maximilian A
  id: 2BD278E6-F248-11E8-B48F-1D18A9856A87
  last_name: Jösch
  orcid: 0000-0002-3937-1330
- first_name: Friedrich
  full_name: Förstner, Friedrich
  last_name: Förstner
- first_name: Shamprasad
  full_name: Raghu, Shamprasad
  last_name: Raghu
- first_name: Hideo
  full_name: Otsuna, Hideo
  last_name: Otsuna
- first_name: Kei
  full_name: Ito, Kei
  last_name: Ito
- first_name: Alexander
  full_name: Borst, Alexander
  last_name: Borst
- first_name: Dierk
  full_name: Reiff, Dierk
  last_name: Reiff
citation:
  ama: Schnell B, Jösch MA, Förstner F, et al. Processing of horizontal optic flow
    in three visual interneurons of the Drosophila brain. <i>Journal of Neurophysiology</i>.
    2010;103(3):1646-1657. doi:<a href="https://doi.org/10.1152/jn.00950.2009">10.1152/jn.00950.2009</a>
  apa: Schnell, B., Jösch, M. A., Förstner, F., Raghu, S., Otsuna, H., Ito, K., …
    Reiff, D. (2010). Processing of horizontal optic flow in three visual interneurons
    of the Drosophila brain. <i>Journal of Neurophysiology</i>. American Physiological
    Society. <a href="https://doi.org/10.1152/jn.00950.2009">https://doi.org/10.1152/jn.00950.2009</a>
  chicago: Schnell, Bettina, Maximilian A Jösch, Friedrich Förstner, Shamprasad Raghu,
    Hideo Otsuna, Kei Ito, Alexander Borst, and Dierk Reiff. “Processing of Horizontal
    Optic Flow in Three Visual Interneurons of the Drosophila Brain.” <i>Journal of
    Neurophysiology</i>. American Physiological Society, 2010. <a href="https://doi.org/10.1152/jn.00950.2009">https://doi.org/10.1152/jn.00950.2009</a>.
  ieee: B. Schnell <i>et al.</i>, “Processing of horizontal optic flow in three visual
    interneurons of the Drosophila brain,” <i>Journal of Neurophysiology</i>, vol.
    103, no. 3. American Physiological Society, pp. 1646–1657, 2010.
  ista: Schnell B, Jösch MA, Förstner F, Raghu S, Otsuna H, Ito K, Borst A, Reiff
    D. 2010. Processing of horizontal optic flow in three visual interneurons of the
    Drosophila brain. Journal of Neurophysiology. 103(3), 1646–1657.
  mla: Schnell, Bettina, et al. “Processing of Horizontal Optic Flow in Three Visual
    Interneurons of the Drosophila Brain.” <i>Journal of Neurophysiology</i>, vol.
    103, no. 3, American Physiological Society, 2010, pp. 1646–57, doi:<a href="https://doi.org/10.1152/jn.00950.2009">10.1152/jn.00950.2009</a>.
  short: B. Schnell, M.A. Jösch, F. Förstner, S. Raghu, H. Otsuna, K. Ito, A. Borst,
    D. Reiff, Journal of Neurophysiology 103 (2010) 1646–1657.
date_created: 2018-12-11T11:51:14Z
date_published: 2010-03-01T00:00:00Z
date_updated: 2021-01-12T06:49:44Z
day: '01'
doi: 10.1152/jn.00950.2009
extern: '1'
external_id:
  pmid:
  - '20089816'
intvolume: '       103'
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 1646 - 1657
pmid: 1
publication: Journal of Neurophysiology
publication_identifier:
  eissn:
  - 1522-1598
  issn:
  - ' 0022-3077'
publication_status: published
publisher: American Physiological Society
publist_id: '5971'
quality_controlled: '1'
status: public
title: Processing of horizontal optic flow in three visual interneurons of the Drosophila
  brain
type: journal_article
user_id: D865714E-FA4E-11E9-B85B-F5C5E5697425
volume: 103
year: '2010'
...
---
_id: '2071'
abstract:
- lang: eng
  text: The X or Z chromosome has several characteristics that distinguish it from
    the autosomes, namely hemizygosity in the heterogametic sex, and a potentially
    different effective population size, both of which may influence the rate and
    nature of evolution. In particular, there may be an accelerated rate of adaptive
    change for X-linked compared to autosomal coding sequences, often referred to
    as the Faster-X effect. Empirical studies have indicated that the strength of
    Faster-X evolution varies among different species, and theoretical treatments
    have shown that demography and mating system can substantially affect the degree
    of Faster-X evolution. Here we integrate genomic data on Faster-X evolution from
    a variety of animals with the demographic factors, mating system, and sex chromosome
    regulatory characteristics that may influence it. Our results suggest that differences
    in effective population size and mechanisms of dosage compensation may influence
    the perceived extent of Faster-X evolution, and help to explain several clade-specific
    patterns that we observe.
acknowledgement: We gratefully acknowledge funding from the Royal Society (to JEM)
author:
- first_name: Judith
  full_name: Mank, Judith E
  last_name: Mank
- first_name: Beatriz
  full_name: Beatriz Vicoso
  id: 49E1C5C6-F248-11E8-B48F-1D18A9856A87
  last_name: Vicoso
  orcid: 0000-0002-4579-8306
- first_name: Sofia
  full_name: Berlin, Sofia
  last_name: Berlin
- first_name: Brian
  full_name: Charlesworth, Brian
  last_name: Charlesworth
citation:
  ama: 'Mank J, Vicoso B, Berlin S, Charlesworth B. Effective population size and
    the Faster-X effect: Empirical results and their interpretation. <i>Evolution</i>.
    2010;64(3):663-674. doi:<a href="https://doi.org/10.1111/j.1558-5646.2009.00853.x">10.1111/j.1558-5646.2009.00853.x</a>'
  apa: 'Mank, J., Vicoso, B., Berlin, S., &#38; Charlesworth, B. (2010). Effective
    population size and the Faster-X effect: Empirical results and their interpretation.
    <i>Evolution</i>. Wiley-Blackwell. <a href="https://doi.org/10.1111/j.1558-5646.2009.00853.x">https://doi.org/10.1111/j.1558-5646.2009.00853.x</a>'
  chicago: 'Mank, Judith, Beatriz Vicoso, Sofia Berlin, and Brian Charlesworth. “Effective
    Population Size and the Faster-X Effect: Empirical Results and Their Interpretation.”
    <i>Evolution</i>. Wiley-Blackwell, 2010. <a href="https://doi.org/10.1111/j.1558-5646.2009.00853.x">https://doi.org/10.1111/j.1558-5646.2009.00853.x</a>.'
  ieee: 'J. Mank, B. Vicoso, S. Berlin, and B. Charlesworth, “Effective population
    size and the Faster-X effect: Empirical results and their interpretation,” <i>Evolution</i>,
    vol. 64, no. 3. Wiley-Blackwell, pp. 663–674, 2010.'
  ista: 'Mank J, Vicoso B, Berlin S, Charlesworth B. 2010. Effective population size
    and the Faster-X effect: Empirical results and their interpretation. Evolution.
    64(3), 663–674.'
  mla: 'Mank, Judith, et al. “Effective Population Size and the Faster-X Effect: Empirical
    Results and Their Interpretation.” <i>Evolution</i>, vol. 64, no. 3, Wiley-Blackwell,
    2010, pp. 663–74, doi:<a href="https://doi.org/10.1111/j.1558-5646.2009.00853.x">10.1111/j.1558-5646.2009.00853.x</a>.'
  short: J. Mank, B. Vicoso, S. Berlin, B. Charlesworth, Evolution 64 (2010) 663–674.
date_created: 2018-12-11T11:55:32Z
date_published: 2010-03-01T00:00:00Z
date_updated: 2021-01-12T06:55:07Z
day: '01'
doi: 10.1111/j.1558-5646.2009.00853.x
extern: 1
intvolume: '        64'
issue: '3'
month: '03'
page: 663 - 674
publication: Evolution
publication_status: published
publisher: Wiley-Blackwell
publist_id: '4967'
quality_controlled: 0
status: public
title: 'Effective population size and the Faster-X effect: Empirical results and their
  interpretation'
type: journal_article
volume: 64
year: '2010'
...
---
_id: '2075'
abstract:
- lang: eng
  text: "This thesis investigates the combination of data-driven and physically based
    techniques for acquiring, modeling, and animating deformable materials, with a
    special focus on human faces. Furthermore, based on these techniques, we introduce
    a data-driven process for designing and fabricating materials with desired deformation
    behavior. \nRealistic simulation behavior, surface details, and appearance are
    still demanding tasks. Neither pure data-driven, pure procedural, nor pure physical
    methods are best suited for accurate synthesis of facial motion and details (both
    for appearance and geometry), due to the difficulties in model design, parameter
    estimation, and desired controllability for animators. Capturing of a small but
    representative amount of real data, and then synthesizing diverse on-demand examples
    with physically-based models and real data as input benefits from both sides:
    Highly realistic model behavior due to real-world data and controllability due
    to physically-based models.\nTo model the face and its behavior, hybrid physically-based
    and data-driven approaches are elaborated. We investigate surface-based representations
    as well as a solid representation based on FEM. To achieve realistic behavior,
    we propose to build light-weighted data capture devices to acquire real-world
    data to estimate model parameters and to employ concepts from data-driven modeling
    techniques and machine learning. The resulting models support simple acquisition
    systems, offer techniques to process and extract model parameters from real-world
    data, provide a compact representation of the facial geometry and its motion,
    and allow intuitive editing. We demonstrate applications such as capture of facial
    geometry and motion and real-time animation and transfer of facial details, and
    show that our soft tissue model can react to external forces and produce realistic
    deformations beyond facial expressions.\nBased on this model, we furthermore introduce
    a data-driven process for designing and fabricating materials with desired deformation
    behavior. The process starts with measuring deformation properties of base materials.
    Each material is represented as a non-linear stress-strain relationship in a finite-element
    model. For material design and fabrication, we introduce an optimization process
    that finds the best combination of base materials that meets a user’s criteria
    specified by example deformations. Our algorithm employs a number of strategies
    to prune poor solutions from the combinatorial search space. We finally demonstrate
    the complete process by designing and fabricating objects with complex heterogeneous
    materials using modern multi-material 3D printers.\n"
author:
- first_name: Bernd
  full_name: Bernd Bickel
  id: 49876194-F248-11E8-B48F-1D18A9856A87
  last_name: Bickel
  orcid: 0000-0001-6511-9385
citation:
  ama: Bickel B. Measurement-based modeling and fabrication of deformable materials
    for human faces. <i>Unknown</i>. 2010;499(7458). doi:<a href="https://doi.org/dx.doi.org/10.3929/ethz-a-006354908">dx.doi.org/10.3929/ethz-a-006354908</a>
  apa: Bickel, B. (2010). <i>Measurement-based modeling and fabrication of deformable
    materials for human faces</i>. <i>Unknown</i>. Unknown. <a href="https://doi.org/dx.doi.org/10.3929/ethz-a-006354908">https://doi.org/dx.doi.org/10.3929/ethz-a-006354908</a>
  chicago: Bickel, Bernd. “Measurement-Based Modeling and Fabrication of Deformable
    Materials for Human Faces.” <i>Unknown</i>. Unknown, 2010. <a href="https://doi.org/dx.doi.org/10.3929/ethz-a-006354908">https://doi.org/dx.doi.org/10.3929/ethz-a-006354908</a>.
  ieee: B. Bickel, “Measurement-based modeling and fabrication of deformable materials
    for human faces,” Unknown, 2010.
  ista: Bickel B. 2010. Measurement-based modeling and fabrication of deformable materials
    for human faces. Unknown.
  mla: Bickel, Bernd. “Measurement-Based Modeling and Fabrication of Deformable Materials
    for Human Faces.” <i>Unknown</i>, vol. 499, no. 7458, Unknown, 2010, doi:<a href="https://doi.org/dx.doi.org/10.3929/ethz-a-006354908">dx.doi.org/10.3929/ethz-a-006354908</a>.
  short: B. Bickel, Measurement-Based Modeling and Fabrication of Deformable Materials
    for Human Faces, Unknown, 2010.
date_created: 2018-12-11T11:55:34Z
date_published: 2010-01-01T00:00:00Z
date_updated: 2021-01-12T06:55:09Z
day: '01'
doi: dx.doi.org/10.3929/ethz-a-006354908
extern: 1
intvolume: '       499'
issue: '7458'
month: '01'
publication: Unknown
publication_status: published
publisher: Unknown
publist_id: '4963'
quality_controlled: 0
status: public
title: Measurement-based modeling and fabrication of deformable materials for human
  faces
type: dissertation
volume: 499
year: '2010'
...
---
_id: '1970'
abstract:
- lang: eng
  text: 'Complex I is the first enzyme of the respiratory chain and has a central
    role in cellular energy production, coupling electron transfer between NADH and
    quinone to proton translocation by an unknown mechanism. Dysfunction of complex
    I has been implicated in many human neurodegenerative diseases. We have determined
    the structure of its hydrophilic domain previously. Here, we report the α-helical
    structure of the membrane domain of complex I from Escherichia coli at 3.9 Å resolution.
    The antiporter-like subunits NuoL/M/N each contain 14 conserved transmembrane
    (TM) helices. Two of them are discontinuous, as in some transporters. Unexpectedly,
    subunit NuoL also contains a 110-Å long amphipathic α-helix, spanning almost the
    entire length of the domain. Furthermore, we have determined the structure of
    the entire complex I from Thermus thermophilus at 4.5 Å resolution. The L-shaped
    assembly consists of the α-helical model for the membrane domain, with 63 TM helices,
    and the known structure of the hydrophilic domain. The architecture of the complex
    provides strong clues about the coupling mechanism: the conformational changes
    at the interface of the two main domains may drive the long amphipathic α-helix
    of NuoL in a piston-like motion, tilting nearby discontinuous TM helices, resulting
    in proton translocation.'
acknowledgement: This work was funded by the Medical Research Council.
author:
- first_name: Rouslan
  full_name: Efremov, Rouslan G
  last_name: Efremov
- first_name: Rozbeh
  full_name: 'Baradaran, Rozbeh '
  last_name: Baradaran
- first_name: Leonid A
  full_name: Leonid Sazanov
  id: 338D39FE-F248-11E8-B48F-1D18A9856A87
  last_name: Sazanov
  orcid: 0000-0002-0977-7989
citation:
  ama: Efremov R, Baradaran R, Sazanov LA. The architecture of respiratory complex
    I. <i>Nature</i>. 2010;465(7297):441-445. doi:<a href="https://doi.org/10.1038/nature09066">10.1038/nature09066</a>
  apa: Efremov, R., Baradaran, R., &#38; Sazanov, L. A. (2010). The architecture of
    respiratory complex I. <i>Nature</i>. Nature Publishing Group. <a href="https://doi.org/10.1038/nature09066">https://doi.org/10.1038/nature09066</a>
  chicago: Efremov, Rouslan, Rozbeh Baradaran, and Leonid A Sazanov. “The Architecture
    of Respiratory Complex I.” <i>Nature</i>. Nature Publishing Group, 2010. <a href="https://doi.org/10.1038/nature09066">https://doi.org/10.1038/nature09066</a>.
  ieee: R. Efremov, R. Baradaran, and L. A. Sazanov, “The architecture of respiratory
    complex I,” <i>Nature</i>, vol. 465, no. 7297. Nature Publishing Group, pp. 441–445,
    2010.
  ista: Efremov R, Baradaran R, Sazanov LA. 2010. The architecture of respiratory
    complex I. Nature. 465(7297), 441–445.
  mla: Efremov, Rouslan, et al. “The Architecture of Respiratory Complex I.” <i>Nature</i>,
    vol. 465, no. 7297, Nature Publishing Group, 2010, pp. 441–45, doi:<a href="https://doi.org/10.1038/nature09066">10.1038/nature09066</a>.
  short: R. Efremov, R. Baradaran, L.A. Sazanov, Nature 465 (2010) 441–445.
date_created: 2018-12-11T11:54:58Z
date_published: 2010-05-27T00:00:00Z
date_updated: 2021-01-12T06:54:25Z
day: '27'
doi: 10.1038/nature09066
extern: 1
intvolume: '       465'
issue: '7297'
month: '05'
page: 441 - 445
publication: Nature
publication_status: published
publisher: Nature Publishing Group
publist_id: '5113'
quality_controlled: 0
status: public
title: The architecture of respiratory complex I
type: journal_article
volume: 465
year: '2010'
...
---
_id: '14983'
abstract:
- lang: eng
  text: 'This chapter tackles a difficult challenge: presenting signal processing
    material to non-experts. This chapter is meant to be comprehensible to people
    who have some math background, including a course in linear algebra and basic
    statistics, but do not specialize in mathematics, engineering, or related fields.
    Some formulas assume the reader is familiar with matrices and basic matrix operations,
    but not more advanced material. Furthermore, we tried to make the chapter readable
    even if you skip the formulas. Nevertheless, we include some simple methods to
    demonstrate the basics of adaptive data processing, then we proceed with some
    advanced methods that are fundamental in adaptive signal processing, and are likely
    to be useful in a variety of applications. The advanced algorithms are also online
    available [30]. In the second part, these techniques are applied to some real-world
    BCI data.'
acknowledgement: This work was supported by the EU grants “BrainCom” (FP6-2004-Mobility-5
  Grant No 024259) and “Multi-adaptive BCI” (MEIF-CT-2006 Grant No 040666). Furthermore,
  we thank Matthias Krauledat for fruitful discussions and tools for generating Fig.
  5.
alternative_title:
- The Frontiers Collection
article_processing_charge: No
author:
- first_name: Alois
  full_name: Schlögl, Alois
  id: 45BF87EE-F248-11E8-B48F-1D18A9856A87
  last_name: Schlögl
  orcid: 0000-0002-5621-8100
- first_name: Carmen
  full_name: Vidaurre, Carmen
  last_name: Vidaurre
- first_name: Klaus-Robert
  full_name: Müller, Klaus-Robert
  last_name: Müller
citation:
  ama: 'Schlögl A, Vidaurre C, Müller K-R. Adaptive Methods in BCI Research - An Introductory
    Tutorial. In: Graimann B, Pfurtscheller G, Allison B, eds. <i>Brain-Computer Interfaces</i>.
    1st ed. FRONTCOLL. Berlin, Heidelberg: Springer; 2010:331-355. doi:<a href="https://doi.org/10.1007/978-3-642-02091-9_18">10.1007/978-3-642-02091-9_18</a>'
  apa: 'Schlögl, A., Vidaurre, C., &#38; Müller, K.-R. (2010). Adaptive Methods in
    BCI Research - An Introductory Tutorial. In B. Graimann, G. Pfurtscheller, &#38;
    B. Allison (Eds.), <i>Brain-Computer Interfaces</i> (1st ed., pp. 331–355). Berlin,
    Heidelberg: Springer. <a href="https://doi.org/10.1007/978-3-642-02091-9_18">https://doi.org/10.1007/978-3-642-02091-9_18</a>'
  chicago: 'Schlögl, Alois, Carmen Vidaurre, and Klaus-Robert Müller. “Adaptive Methods
    in BCI Research - An Introductory Tutorial.” In <i>Brain-Computer Interfaces</i>,
    edited by Bernhard Graimann, Gert Pfurtscheller, and Brendan Allison, 1st ed.,
    331–55. FRONTCOLL. Berlin, Heidelberg: Springer, 2010. <a href="https://doi.org/10.1007/978-3-642-02091-9_18">https://doi.org/10.1007/978-3-642-02091-9_18</a>.'
  ieee: 'A. Schlögl, C. Vidaurre, and K.-R. Müller, “Adaptive Methods in BCI Research
    - An Introductory Tutorial,” in <i>Brain-Computer Interfaces</i>, 1st ed., B.
    Graimann, G. Pfurtscheller, and B. Allison, Eds. Berlin, Heidelberg: Springer,
    2010, pp. 331–355.'
  ista: 'Schlögl A, Vidaurre C, Müller K-R. 2010.Adaptive Methods in BCI Research
    - An Introductory Tutorial. In: Brain-Computer Interfaces. The Frontiers Collection,
    , 331–355.'
  mla: Schlögl, Alois, et al. “Adaptive Methods in BCI Research - An Introductory
    Tutorial.” <i>Brain-Computer Interfaces</i>, edited by Bernhard Graimann et al.,
    1st ed., Springer, 2010, pp. 331–55, doi:<a href="https://doi.org/10.1007/978-3-642-02091-9_18">10.1007/978-3-642-02091-9_18</a>.
  short: A. Schlögl, C. Vidaurre, K.-R. Müller, in:, B. Graimann, G. Pfurtscheller,
    B. Allison (Eds.), Brain-Computer Interfaces, 1st ed., Springer, Berlin, Heidelberg,
    2010, pp. 331–355.
corr_author: '1'
date_created: 2024-02-14T09:56:00Z
date_published: 2010-09-06T00:00:00Z
date_updated: 2024-10-21T06:03:06Z
day: '06'
department:
- _id: ScienComp
doi: 10.1007/978-3-642-02091-9_18
edition: '1'
editor:
- first_name: Bernhard
  full_name: Graimann, Bernhard
  last_name: Graimann
- first_name: Gert
  full_name: Pfurtscheller, Gert
  last_name: Pfurtscheller
- first_name: Brendan
  full_name: Allison, Brendan
  last_name: Allison
language:
- iso: eng
month: '09'
oa_version: None
page: 331-355
place: Berlin, Heidelberg
publication: Brain-Computer Interfaces
publication_identifier:
  eisbn:
  - '9783642020919'
  isbn:
  - '9783642020902'
  issn:
  - 1612-3018
publication_status: published
publisher: Springer
quality_controlled: '1'
scopus_import: '1'
series_title: FRONTCOLL
status: public
title: Adaptive Methods in BCI Research - An Introductory Tutorial
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2010'
...
