---
OA_type: closed access
_id: '21106'
abstract:
- lang: eng
text: The crystal structure of the tetradecanucleotide sequence d(CCCCGGTACCGGGG)2
has been determined at 2.5 Å resolution in the tetragonal space group P41. This
sequence was designed with the expectation of a four-way junction. However, the
sequence crystallized as an A-DNA duplex and represents more than one full turn
of the A-helix. The crystallographic asymmetric unit consists of one tetradecanucleotide
duplex. The structural parameters of the A-type DNA duplex structure and the crystal-packing
arrangement are described. One Mn2+ ion was identified with direct coordination
to the N7 position of G13 and a water molecule at the major-groove side of the
C2·G13 base pair.
article_processing_charge: No
article_type: original
author:
- first_name: Pradeep K
full_name: Mandal, Pradeep K
id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3
last_name: Mandal
orcid: 0000-0001-5996-956X
- first_name: Sarkarai
full_name: Venkadesh, Sarkarai
last_name: Venkadesh
- first_name: Namasivayam
full_name: Gautham, Namasivayam
last_name: Gautham
citation:
ama: Mandal PK, Venkadesh S, Gautham N. Structure of the tetradecanucleotide d(CCCCGGTACCGGGG)2
as an A-DNA duplex. Acta Crystallographica Section F Structural Biology Communications.
2012;68(4):393-399. doi:10.1107/s174430911200869x
apa: Mandal, P. K., Venkadesh, S., & Gautham, N. (2012). Structure of the tetradecanucleotide
d(CCCCGGTACCGGGG)2 as an A-DNA duplex. Acta Crystallographica Section F Structural
Biology Communications. International Union of Crystallography. https://doi.org/10.1107/s174430911200869x
chicago: Mandal, Pradeep K, Sarkarai Venkadesh, and Namasivayam Gautham. “Structure
of the Tetradecanucleotide d(CCCCGGTACCGGGG)2 as an A-DNA Duplex.” Acta Crystallographica
Section F Structural Biology Communications. International Union of Crystallography,
2012. https://doi.org/10.1107/s174430911200869x.
ieee: P. K. Mandal, S. Venkadesh, and N. Gautham, “Structure of the tetradecanucleotide
d(CCCCGGTACCGGGG)2 as an A-DNA duplex,” Acta Crystallographica Section F Structural
Biology Communications, vol. 68, no. 4. International Union of Crystallography,
pp. 393–399, 2012.
ista: Mandal PK, Venkadesh S, Gautham N. 2012. Structure of the tetradecanucleotide
d(CCCCGGTACCGGGG)2 as an A-DNA duplex. Acta Crystallographica Section F Structural
Biology Communications. 68(4), 393–399.
mla: Mandal, Pradeep K., et al. “Structure of the Tetradecanucleotide d(CCCCGGTACCGGGG)2
as an A-DNA Duplex.” Acta Crystallographica Section F Structural Biology Communications,
vol. 68, no. 4, International Union of Crystallography, 2012, pp. 393–99, doi:10.1107/s174430911200869x.
short: P.K. Mandal, S. Venkadesh, N. Gautham, Acta Crystallographica Section F Structural
Biology Communications 68 (2012) 393–399.
date_created: 2026-01-29T22:04:31Z
date_published: 2012-04-01T00:00:00Z
date_updated: 2026-02-23T08:58:07Z
day: '01'
doi: 10.1107/s174430911200869x
extern: '1'
fulldoi: https://doi.org/10.1107/s174430911200869x
has_accepted_license: '1'
intvolume: ' 68'
issue: '4'
language:
- iso: eng
month: '04'
oa_version: None
page: 393-399
publication: Acta Crystallographica Section F Structural Biology Communications
publication_identifier:
issn:
- 1744-3091
publication_status: published
publisher: International Union of Crystallography
quality_controlled: '1'
status: public
title: Structure of the tetradecanucleotide d(CCCCGGTACCGGGG)2 as an A-DNA duplex
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2012'
...
---
OA_place: publisher
OA_type: free access
_id: '21111'
abstract:
- lang: eng
text: Inhibiting PLA2 activity should, in theory, be an effective approach to control
the inflammation. Several naturally occurring polyphenolic compounds have been
reported as inhibitors of PLA2. Among the naturally occurring polyphenols, catechol
(1,2-dihydroxybenzene) possesses anti-inflammatory activity. Catechol can inhibit
cyclooxygenase and lipo-oxygenase. By means of enzyme kinetic study, it was revealed
that catechol can inhibit PLA2 also. Crystal structure showed that catechol binds
to PLA2 at the opening of the active site cleft. This might stop the entry of
substrate into the active site. Hence, catechol can be used as a lead compound
for the development of novel anti-inflammatory drugs with PLA2 as the target.
article_processing_charge: No
article_type: original
author:
- first_name: Kalarickal V.
full_name: Dileep, Kalarickal V.
last_name: Dileep
- first_name: Ignatius
full_name: Tintu, Ignatius
last_name: Tintu
- first_name: Pradeep K
full_name: Mandal, Pradeep K
id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3
last_name: Mandal
orcid: 0000-0001-5996-956X
- first_name: Ponnuraj
full_name: Karthe, Ponnuraj
last_name: Karthe
- first_name: Madathilkovilakathu
full_name: Haridas, Madathilkovilakathu
last_name: Haridas
- first_name: Chittalakkottu
full_name: Sadasivan, Chittalakkottu
last_name: Sadasivan
citation:
ama: Dileep KV, Tintu I, Mandal PK, Karthe P, Haridas M, Sadasivan C. Binding to
PLA2 may contribute to the anti‐inflammatory activity of catechol. Chemical
Biology & Drug Design. 2012;79(1):143-147. doi:10.1111/j.1747-0285.2011.01258.x
apa: Dileep, K. V., Tintu, I., Mandal, P. K., Karthe, P., Haridas, M., & Sadasivan,
C. (2012). Binding to PLA2 may contribute to the anti‐inflammatory activity of
catechol. Chemical Biology & Drug Design. Wiley. https://doi.org/10.1111/j.1747-0285.2011.01258.x
chicago: Dileep, Kalarickal V., Ignatius Tintu, Pradeep K Mandal, Ponnuraj Karthe,
Madathilkovilakathu Haridas, and Chittalakkottu Sadasivan. “Binding to PLA2 May
Contribute to the Anti‐inflammatory Activity of Catechol.” Chemical Biology
& Drug Design. Wiley, 2012. https://doi.org/10.1111/j.1747-0285.2011.01258.x.
ieee: K. V. Dileep, I. Tintu, P. K. Mandal, P. Karthe, M. Haridas, and C. Sadasivan,
“Binding to PLA2 may contribute to the anti‐inflammatory activity of catechol,”
Chemical Biology & Drug Design, vol. 79, no. 1. Wiley, pp. 143–147,
2012.
ista: Dileep KV, Tintu I, Mandal PK, Karthe P, Haridas M, Sadasivan C. 2012. Binding
to PLA2 may contribute to the anti‐inflammatory activity of catechol. Chemical
Biology & Drug Design. 79(1), 143–147.
mla: Dileep, Kalarickal V., et al. “Binding to PLA2 May Contribute to the Anti‐inflammatory
Activity of Catechol.” Chemical Biology & Drug Design, vol. 79, no.
1, Wiley, 2012, pp. 143–47, doi:10.1111/j.1747-0285.2011.01258.x.
short: K.V. Dileep, I. Tintu, P.K. Mandal, P. Karthe, M. Haridas, C. Sadasivan,
Chemical Biology & Drug Design 79 (2012) 143–147.
date_created: 2026-01-29T22:12:53Z
date_published: 2012-01-01T00:00:00Z
date_updated: 2026-02-20T08:20:52Z
day: '01'
doi: 10.1111/j.1747-0285.2011.01258.x
extern: '1'
external_id:
pmid:
- '21995306'
fulldoi: https://doi.org/10.1111/j.1747-0285.2011.01258.x
has_accepted_license: '1'
intvolume: ' 79'
issue: '1'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1111/j.1747-0285.2011.01258.x
month: '01'
oa: 1
oa_version: Published Version
page: 143-147
pmid: 1
publication: Chemical Biology & Drug Design
publication_identifier:
eissn:
- 1747-0285
issn:
- 1747-0277
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: Binding to PLA2 may contribute to the anti‐inflammatory activity of catechol
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 79
year: '2012'
...
---
OA_type: free access
_id: '21112'
abstract:
- lang: eng
text: Ester bond hydrolysis of membrane phospholipids by Phospholipase A2
and consequent release of fatty acids are the initiating steps of inflammation.
It is proposed in this study that the inhibition of phospholipase A2 is one of
the ways to control inflammation. Investigations are carried out to identify the
mode of inhibition of phospholipase A2 by the n‐hexadecanoic acid. It may help
in designing of specific inhibitors of phospholipase A2 as anti‐inflammatory agents.
The enzyme kinetics study proved that n‐hexadecanoic acid inhibits phospholipase
A2 in a competitive manner. It was identified from the crystal structure at 2.5Å
resolution that the position of n‐hexadecanoic acid is in the active site of the
phospholipase A2. The binding constant and binding energy have also been calculated
using Isothermal Titration Calorimetry. Also, the binding energy of n‐hexadecanoic
acid to phospholipase A2 was calculated by in silico method and compared with
known inhibitors. It may be concluded from the structural and kinetics studies
that the fatty acid, n‐hexadecanoic acid, is an inhibitor of phospholipase A2,
hence, an anti‐inflammatory compound. The inferences from the present study validate
the rigorous use of medicated oils rich in n‐hexadecanoic acid for the treatment
of rheumatic symptoms in the traditional medical system of India, Ayurveda.
article_processing_charge: No
article_type: original
author:
- first_name: Vasudevan
full_name: Aparna, Vasudevan
last_name: Aparna
- first_name: Kalarickal V.
full_name: Dileep, Kalarickal V.
last_name: Dileep
- first_name: Pradeep K
full_name: Mandal, Pradeep K
id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3
last_name: Mandal
orcid: 0000-0001-5996-956X
- first_name: Ponnuraj
full_name: Karthe, Ponnuraj
last_name: Karthe
- first_name: Chittalakkottu
full_name: Sadasivan, Chittalakkottu
last_name: Sadasivan
- first_name: Madathilkovilakathu
full_name: Haridas, Madathilkovilakathu
last_name: Haridas
citation:
ama: 'Aparna V, Dileep KV, Mandal PK, Karthe P, Sadasivan C, Haridas M. Anti-inflammatory
property of n-hexadecanoic acid: Structural evidence and kinetic assessment. Chemical
Biology & Drug Design. 2012;80(3):434-439. doi:10.1111/j.1747-0285.2012.01418.x'
apa: 'Aparna, V., Dileep, K. V., Mandal, P. K., Karthe, P., Sadasivan, C., &
Haridas, M. (2012). Anti-inflammatory property of n-hexadecanoic acid: Structural
evidence and kinetic assessment. Chemical Biology & Drug Design. Wiley.
https://doi.org/10.1111/j.1747-0285.2012.01418.x'
chicago: 'Aparna, Vasudevan, Kalarickal V. Dileep, Pradeep K Mandal, Ponnuraj Karthe,
Chittalakkottu Sadasivan, and Madathilkovilakathu Haridas. “Anti-Inflammatory
Property of n-Hexadecanoic Acid: Structural Evidence and Kinetic Assessment.”
Chemical Biology & Drug Design. Wiley, 2012. https://doi.org/10.1111/j.1747-0285.2012.01418.x.'
ieee: 'V. Aparna, K. V. Dileep, P. K. Mandal, P. Karthe, C. Sadasivan, and M. Haridas,
“Anti-inflammatory property of n-hexadecanoic acid: Structural evidence and kinetic
assessment,” Chemical Biology & Drug Design, vol. 80, no. 3. Wiley,
pp. 434–439, 2012.'
ista: 'Aparna V, Dileep KV, Mandal PK, Karthe P, Sadasivan C, Haridas M. 2012. Anti-inflammatory
property of n-hexadecanoic acid: Structural evidence and kinetic assessment. Chemical
Biology & Drug Design. 80(3), 434–439.'
mla: 'Aparna, Vasudevan, et al. “Anti-Inflammatory Property of n-Hexadecanoic Acid:
Structural Evidence and Kinetic Assessment.” Chemical Biology & Drug Design,
vol. 80, no. 3, Wiley, 2012, pp. 434–39, doi:10.1111/j.1747-0285.2012.01418.x.'
short: V. Aparna, K.V. Dileep, P.K. Mandal, P. Karthe, C. Sadasivan, M. Haridas,
Chemical Biology & Drug Design 80 (2012) 434–439.
date_created: 2026-01-29T22:14:04Z
date_published: 2012-09-01T00:00:00Z
date_updated: 2026-02-20T08:23:29Z
day: '01'
doi: 10.1111/j.1747-0285.2012.01418.x
extern: '1'
external_id:
pmid:
- '22642495'
fulldoi: https://doi.org/10.1111/j.1747-0285.2012.01418.x
has_accepted_license: '1'
intvolume: ' 80'
issue: '3'
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://doi.org/10.1111/j.1747-0285.2012.01418.x
month: '09'
oa: 1
oa_version: Published Version
page: 434-439
pmid: 1
publication: Chemical Biology & Drug Design
publication_identifier:
eissn:
- 1747-0285
issn:
- 1747-0277
publication_status: published
publisher: Wiley
quality_controlled: '1'
status: public
title: 'Anti-inflammatory property of n-hexadecanoic acid: Structural evidence and
kinetic assessment'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 80
year: '2012'
...
---
OA_type: closed access
_id: '21151'
abstract:
- lang: eng
text: The decanucleotide sequence d(CCGGTACCGG) crystallizes as a four-way junction
at low cobalt ion concentrations (i.e., 1 mM). When the cobalt concentration in
the crystallization solution is increased to 5 mM, the sequence crystallizes as
resolved B-DNA duplexes. Gel retardation studies of the decamer show both a faint
slow-moving band and a much thicker fast-moving band at low cobalt ion concentrations,
and only the intense fast-moving band at higher ion concentration. Circular dichroism
(CD) spectroscopy of the decamer indicates a structural transition as the cobalt
ion concentration in the solution is increased, probably from B-type to A-type
DNA. These studies revealed that the oligomer sequence has several conformations
and structures accessible to it, in a manner dependent on sequence, ion concentration,
and DNA concentration.
article_processing_charge: No
article_type: original
author:
- first_name: S.
full_name: Venkadesh, S.
last_name: Venkadesh
- first_name: Pradeep K
full_name: Mandal, Pradeep K
id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3
last_name: Mandal
orcid: 0000-0001-5996-956X
- first_name: N.
full_name: Gautham, N.
last_name: Gautham
citation:
ama: Venkadesh S, Mandal PK, Gautham N. Crystallographic and spectroscopic studies
of d(CCGGTACCGG). Nucleosides, Nucleotides and Nucleic Acids. 2012;31(3):184-196.
doi:10.1080/15257770.2011.648363
apa: Venkadesh, S., Mandal, P. K., & Gautham, N. (2012). Crystallographic and
spectroscopic studies of d(CCGGTACCGG). Nucleosides, Nucleotides and Nucleic
Acids. Informa UK Limited. https://doi.org/10.1080/15257770.2011.648363
chicago: Venkadesh, S., Pradeep K Mandal, and N. Gautham. “Crystallographic and
Spectroscopic Studies of d(CCGGTACCGG).” Nucleosides, Nucleotides and Nucleic
Acids. Informa UK Limited, 2012. https://doi.org/10.1080/15257770.2011.648363.
ieee: S. Venkadesh, P. K. Mandal, and N. Gautham, “Crystallographic and spectroscopic
studies of d(CCGGTACCGG),” Nucleosides, Nucleotides and Nucleic Acids,
vol. 31, no. 3. Informa UK Limited, pp. 184–196, 2012.
ista: Venkadesh S, Mandal PK, Gautham N. 2012. Crystallographic and spectroscopic
studies of d(CCGGTACCGG). Nucleosides, Nucleotides and Nucleic Acids. 31(3), 184–196.
mla: Venkadesh, S., et al. “Crystallographic and Spectroscopic Studies of d(CCGGTACCGG).”
Nucleosides, Nucleotides and Nucleic Acids, vol. 31, no. 3, Informa UK
Limited, 2012, pp. 184–96, doi:10.1080/15257770.2011.648363.
short: S. Venkadesh, P.K. Mandal, N. Gautham, Nucleosides, Nucleotides and Nucleic
Acids 31 (2012) 184–196.
date_created: 2026-02-06T12:10:42Z
date_published: 2012-03-01T00:00:00Z
date_updated: 2026-02-20T08:17:42Z
day: '01'
doi: 10.1080/15257770.2011.648363
extern: '1'
external_id:
pmid:
- '22356234'
fulldoi: https://doi.org/10.1080/15257770.2011.648363
has_accepted_license: '1'
intvolume: ' 31'
issue: '3'
language:
- iso: eng
month: '03'
oa_version: None
page: 184-196
pmid: 1
publication: Nucleosides, Nucleotides and Nucleic Acids
publication_identifier:
eissn:
- 1532-2335
issn:
- 1525-7770
publication_status: published
publisher: Informa UK Limited
quality_controlled: '1'
status: public
title: Crystallographic and spectroscopic studies of d(CCGGTACCGG)
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 31
year: '2012'
...
---
OA_type: closed access
_id: '21153'
abstract:
- lang: eng
text: "Curcumin possess anti-inflammatory activity. In this study, the binding of
curcumin with PLA2 was studied using X-ray crystallography. Since the electron
density found at the active site did not match with curcumin, 2-methoxycyclohexa-2-5-diene-1,4-dione
(MCW) (the photodegraded product of curcumin) was fitted in the unexplained electron
density. To understand the binding mode of actual curcumin, molecular docking
study was carried out. The crystallographic and docked structures were superimposed
with respect to the ligand position and it was found that curcumin was binding
in the hydrophobic cavity of PLA2 with a binding energy of−16.81 Kcal/mol. The
binding mode was of such a nature that it prevented the entry of the substrate
to the hydrophobic active site. This study indicates that curcumin can act as
an inhibitor of PLA2.\r\n\r\nAn animated Interactive 3D Complement (I3DC) is available
in Proteopedia at http://proteopedia.org/w/Journal:FLS:1."
article_processing_charge: No
article_type: original
author:
- first_name: K. V.
full_name: Dileep, K. V.
last_name: Dileep
- first_name: I.
full_name: Tintu, I.
last_name: Tintu
- first_name: Pradeep K
full_name: Mandal, Pradeep K
id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3
last_name: Mandal
orcid: 0000-0001-5996-956X
- first_name: P.
full_name: Karthe, P.
last_name: Karthe
- first_name: M.
full_name: Haridas, M.
last_name: Haridas
- first_name: C.
full_name: Sadasivan, C.
last_name: Sadasivan
citation:
ama: Dileep KV, Tintu I, Mandal PK, Karthe P, Haridas M, Sadasivan C. Crystal structure
of porcine pancreatic phospholipase A2 in complex with 2-methoxycyclohexa-2-5-diene-1,4-dione.
Frontiers in Life Science. 2012;5(3-4):135-139. doi:10.1080/21553769.2012.689262
apa: Dileep, K. V., Tintu, I., Mandal, P. K., Karthe, P., Haridas, M., & Sadasivan,
C. (2012). Crystal structure of porcine pancreatic phospholipase A2 in complex
with 2-methoxycyclohexa-2-5-diene-1,4-dione. Frontiers in Life Science.
Informa UK Limited. https://doi.org/10.1080/21553769.2012.689262
chicago: Dileep, K. V., I. Tintu, Pradeep K Mandal, P. Karthe, M. Haridas, and C.
Sadasivan. “Crystal Structure of Porcine Pancreatic Phospholipase A2 in Complex
with 2-Methoxycyclohexa-2-5-Diene-1,4-Dione.” Frontiers in Life Science.
Informa UK Limited, 2012. https://doi.org/10.1080/21553769.2012.689262.
ieee: K. V. Dileep, I. Tintu, P. K. Mandal, P. Karthe, M. Haridas, and C. Sadasivan,
“Crystal structure of porcine pancreatic phospholipase A2 in complex with 2-methoxycyclohexa-2-5-diene-1,4-dione,”
Frontiers in Life Science, vol. 5, no. 3–4. Informa UK Limited, pp. 135–139,
2012.
ista: Dileep KV, Tintu I, Mandal PK, Karthe P, Haridas M, Sadasivan C. 2012. Crystal
structure of porcine pancreatic phospholipase A2 in complex with 2-methoxycyclohexa-2-5-diene-1,4-dione.
Frontiers in Life Science. 5(3–4), 135–139.
mla: Dileep, K. V., et al. “Crystal Structure of Porcine Pancreatic Phospholipase
A2 in Complex with 2-Methoxycyclohexa-2-5-Diene-1,4-Dione.” Frontiers in Life
Science, vol. 5, no. 3–4, Informa UK Limited, 2012, pp. 135–39, doi:10.1080/21553769.2012.689262.
short: K.V. Dileep, I. Tintu, P.K. Mandal, P. Karthe, M. Haridas, C. Sadasivan,
Frontiers in Life Science 5 (2012) 135–139.
date_created: 2026-02-06T12:17:45Z
date_published: 2012-08-06T00:00:00Z
date_updated: 2026-02-20T08:07:19Z
day: '06'
doi: 10.1080/21553769.2012.689262
extern: '1'
fulldoi: https://doi.org/10.1080/21553769.2012.689262
has_accepted_license: '1'
intvolume: ' 5'
issue: 3-4
language:
- iso: eng
month: '08'
oa_version: None
page: 135-139
publication: Frontiers in Life Science
publication_identifier:
issn:
- 2155-3769
- 2155-3777
publication_status: published
publisher: Informa UK Limited
quality_controlled: '1'
status: public
title: Crystal structure of porcine pancreatic phospholipase A2 in complex with 2-methoxycyclohexa-2-5-diene-1,4-dione
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 5
year: '2012'
...
---
OA_type: closed access
_id: '21154'
abstract:
- lang: eng
text: The crystal structure of the decamer sequence d(CCGGGACCGG)4 has previously
been reported at 2.16 Å resolution as a four-way junction. Here, the structure
of this sequence is reported at the significantly higher resolution of 1.6 Å,
which is the highest resolution reported for a four-way junction. This allowed
the unambiguous identification of an extensive hydration network with distinct
patterns and solvent-mediated interactions that shed new light on the role of
water in the formation and stabilization of junction structures.
article_processing_charge: No
article_type: original
author:
- first_name: Arka
full_name: Chakraborty, Arka
last_name: Chakraborty
- first_name: Pradeep K
full_name: Mandal, Pradeep K
id: 6a3def15-d4b4-11ef-9fa9-a24c1f545ec3
last_name: Mandal
orcid: 0000-0001-5996-956X
- first_name: Namasivayam
full_name: Gautham, Namasivayam
last_name: Gautham
citation:
ama: 'Chakraborty A, Mandal PK, Gautham N. Structure of d(CCGGGACCGG)4 as a four-way
junction at 1.6 Å resolution: New insights into solvent interactions. Acta
Crystallographica Section F Structural Biology Communications. 2012;68(10):1169-1174.
doi:10.1107/s1744309112034926'
apa: 'Chakraborty, A., Mandal, P. K., & Gautham, N. (2012). Structure of d(CCGGGACCGG)4
as a four-way junction at 1.6 Å resolution: New insights into solvent interactions.
Acta Crystallographica Section F Structural Biology Communications. International
Union of Crystallography. https://doi.org/10.1107/s1744309112034926'
chicago: 'Chakraborty, Arka, Pradeep K Mandal, and Namasivayam Gautham. “Structure
of d(CCGGGACCGG)4 as a Four-Way Junction at 1.6 Å Resolution: New Insights into
Solvent Interactions.” Acta Crystallographica Section F Structural Biology
Communications. International Union of Crystallography, 2012. https://doi.org/10.1107/s1744309112034926.'
ieee: 'A. Chakraborty, P. K. Mandal, and N. Gautham, “Structure of d(CCGGGACCGG)4
as a four-way junction at 1.6 Å resolution: New insights into solvent interactions,”
Acta Crystallographica Section F Structural Biology Communications, vol.
68, no. 10. International Union of Crystallography, pp. 1169–1174, 2012.'
ista: 'Chakraborty A, Mandal PK, Gautham N. 2012. Structure of d(CCGGGACCGG)4 as
a four-way junction at 1.6 Å resolution: New insights into solvent interactions.
Acta Crystallographica Section F Structural Biology Communications. 68(10), 1169–1174.'
mla: 'Chakraborty, Arka, et al. “Structure of d(CCGGGACCGG)4 as a Four-Way Junction
at 1.6 Å Resolution: New Insights into Solvent Interactions.” Acta Crystallographica
Section F Structural Biology Communications, vol. 68, no. 10, International
Union of Crystallography, 2012, pp. 1169–74, doi:10.1107/s1744309112034926.'
short: A. Chakraborty, P.K. Mandal, N. Gautham, Acta Crystallographica Section F
Structural Biology Communications 68 (2012) 1169–1174.
date_created: 2026-02-06T12:19:40Z
date_published: 2012-10-01T00:00:00Z
date_updated: 2026-02-23T08:21:09Z
day: '01'
doi: 10.1107/s1744309112034926
extern: '1'
fulldoi: https://doi.org/10.1107/s1744309112034926
has_accepted_license: '1'
intvolume: ' 68'
issue: '10'
language:
- iso: eng
month: '10'
oa_version: None
page: 1169-1174
publication: Acta Crystallographica Section F Structural Biology Communications
publication_identifier:
issn:
- 1744-3091
publication_status: published
publisher: International Union of Crystallography
status: public
title: 'Structure of d(CCGGGACCGG)4 as a four-way junction at 1.6 Å resolution: New
insights into solvent interactions'
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 68
year: '2012'
...
---
_id: '2125'
abstract:
- lang: eng
text: We consider a class of stochastic PDEs of Burgers type in spatial dimension
1, driven by space–time white noise. Even though it is well known that these equations
are well posed, it turns out that if one performs a spatial discretization of
the nonlinearity in the “wrong” way, then the sequence of approximate equations
does converge to a limit, but this limit exhibits an additional correction term.
This correction term is proportional to the local quadratic cross-variation (in
space) of the gradient of the conserved quantity with the solution itself. This
can be understood as a consequence of the fact that for any fixed time, the law
of the solution is locally equivalent to Wiener measure, where space plays the
role of time. In this sense, the correction term is similar to the usual Itô–Stratonovich
correction term that arises when one considers different temporal discretizations
of stochastic ODEs.
acknowledgement: Supported by Rubicon Grant 680-50-0901 of the Netherlands Organisation
for Scientific Research (NWO). Supported by the EPSRC Grants EP/E002269/1 and EP/D071593/1,
a Wolfson Research Merit Award of the Royal Society and a Philip Leverhulme prize
of the Lev
author:
- first_name: Martin
full_name: Hairer, Martin M
last_name: Hairer
- first_name: Jan
full_name: Jan Maas
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
citation:
ama: Hairer M, Maas J. A spatial version of the Itô-Stratonovich correction. Annals
of Probability. 2012;40(4):1675-1714. doi:10.1214/11-AOP662
apa: Hairer, M., & Maas, J. (2012). A spatial version of the Itô-Stratonovich
correction. Annals of Probability. Institute of Mathematical Statistics.
https://doi.org/10.1214/11-AOP662
chicago: Hairer, Martin, and Jan Maas. “A Spatial Version of the Itô-Stratonovich
Correction.” Annals of Probability. Institute of Mathematical Statistics,
2012. https://doi.org/10.1214/11-AOP662.
ieee: M. Hairer and J. Maas, “A spatial version of the Itô-Stratonovich correction,”
Annals of Probability, vol. 40, no. 4. Institute of Mathematical Statistics,
pp. 1675–1714, 2012.
ista: Hairer M, Maas J. 2012. A spatial version of the Itô-Stratonovich correction.
Annals of Probability. 40(4), 1675–1714.
mla: Hairer, Martin, and Jan Maas. “A Spatial Version of the Itô-Stratonovich Correction.”
Annals of Probability, vol. 40, no. 4, Institute of Mathematical Statistics,
2012, pp. 1675–714, doi:10.1214/11-AOP662.
short: M. Hairer, J. Maas, Annals of Probability 40 (2012) 1675–1714.
date_created: 2018-12-11T11:55:51Z
date_published: 2012-07-01T00:00:00Z
date_updated: 2021-01-12T06:55:27Z
day: '01'
doi: 10.1214/11-AOP662
extern: 1
fulldoi: https://doi.org/10.1214/11-AOP662
intvolume: ' 40'
issue: '4'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1011.0966
month: '07'
oa: 1
page: 1675 - 1714
publication: Annals of Probability
publication_status: published
publisher: Institute of Mathematical Statistics
publist_id: '4908'
quality_controlled: 0
status: public
title: A spatial version of the Itô-Stratonovich correction
type: journal_article
volume: 40
year: '2012'
...
---
_id: '2127'
abstract:
- lang: eng
text: We study a new notion of Ricci curvature that applies to Markov chains on
discrete spaces. This notion relies on geodesic convexity of the entropy and is
analogous to the one introduced by Lott, Sturm, and Villani for geodesic measure
spaces. In order to apply to the discrete setting, the role of the Wasserstein
metric is taken over by a different metric, having the property that continuous
time Markov chains are gradient flows of the entropy. Using this notion of Ricci
curvature we prove discrete analogues of fundamental results by Bakry–Émery and
Otto–Villani. Further, we show that Ricci curvature bounds are preserved under
tensorisation. As a special case we obtain the sharp Ricci curvature lower bound
for the discrete hypercube.
acknowledgement: Jan Maas is supported by Rubicon subsidy 680-50-0901 of the Netherlands
Organisation for Scientific Research (NWO).
author:
- first_name: Matthias
full_name: Erbar, Matthias
last_name: Erbar
- first_name: Jan
full_name: Jan Maas
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
citation:
ama: Erbar M, Maas J. Ricci curvature of finite Markov chains via convexity of the
entropy. Archive for Rational Mechanics and Analysis. 2012;206(3):997-1038.
doi:10.1007/s00205-012-0554-z
apa: Erbar, M., & Maas, J. (2012). Ricci curvature of finite Markov chains via
convexity of the entropy. Archive for Rational Mechanics and Analysis.
Springer. https://doi.org/10.1007/s00205-012-0554-z
chicago: Erbar, Matthias, and Jan Maas. “Ricci Curvature of Finite Markov Chains
via Convexity of the Entropy.” Archive for Rational Mechanics and Analysis.
Springer, 2012. https://doi.org/10.1007/s00205-012-0554-z.
ieee: M. Erbar and J. Maas, “Ricci curvature of finite Markov chains via convexity
of the entropy,” Archive for Rational Mechanics and Analysis, vol. 206,
no. 3. Springer, pp. 997–1038, 2012.
ista: Erbar M, Maas J. 2012. Ricci curvature of finite Markov chains via convexity
of the entropy. Archive for Rational Mechanics and Analysis. 206(3), 997–1038.
mla: Erbar, Matthias, and Jan Maas. “Ricci Curvature of Finite Markov Chains via
Convexity of the Entropy.” Archive for Rational Mechanics and Analysis,
vol. 206, no. 3, Springer, 2012, pp. 997–1038, doi:10.1007/s00205-012-0554-z.
short: M. Erbar, J. Maas, Archive for Rational Mechanics and Analysis 206 (2012)
997–1038.
date_created: 2018-12-11T11:55:52Z
date_published: 2012-12-01T00:00:00Z
date_updated: 2021-01-12T06:55:28Z
day: '01'
doi: 10.1007/s00205-012-0554-z
extern: 1
fulldoi: https://doi.org/10.1007/s00205-012-0554-z
intvolume: ' 206'
issue: '3'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1111.2687
month: '12'
oa: 1
page: 997 - 1038
publication: Archive for Rational Mechanics and Analysis
publication_status: published
publisher: Springer
publist_id: '4906'
quality_controlled: 0
status: public
title: Ricci curvature of finite Markov chains via convexity of the entropy
type: journal_article
volume: 206
year: '2012'
...
---
_id: '2128'
abstract:
- lang: eng
text: We introduce a technique for handling Whitney decompositions in Gaussian harmonic
analysis and apply it to the study of Gaussian analogues of the classical tent
spaces T 1,q of Coifman–Meyer–Stein.
acknowledgement: J. Maas was supported by Rubicon subsidy 680-50-0901 of the Netherlands
Organisation for Scientific Research (NWO). J. van Neerven was supported by VICI
subsidy 639.033.604 of the Netherlands Organisation for Scientific Research (NWO).
author:
- first_name: Jan
full_name: Jan Maas
id: 4C5696CE-F248-11E8-B48F-1D18A9856A87
last_name: Maas
orcid: 0000-0002-0845-1338
- first_name: Jan
full_name: van Neerven, Jan M
last_name: Van Neerven
- first_name: Pierre
full_name: Portal, Pierre
last_name: Portal
citation:
ama: Maas J, Van Neerven J, Portal P. Whitney coverings and the tent spaces T 1,q
(γ) for the Gaussian measure. Arkiv för Matematik. 2012;50(2):379-395.
doi:10.1007/s11512-010-0143-z
apa: Maas, J., Van Neerven, J., & Portal, P. (2012). Whitney coverings and the
tent spaces T 1,q (γ) for the Gaussian measure. Arkiv För Matematik. Springer.
https://doi.org/10.1007/s11512-010-0143-z
chicago: Maas, Jan, Jan Van Neerven, and Pierre Portal. “Whitney Coverings and the
Tent Spaces T 1,q (γ) for the Gaussian Measure.” Arkiv För Matematik. Springer,
2012. https://doi.org/10.1007/s11512-010-0143-z.
ieee: J. Maas, J. Van Neerven, and P. Portal, “Whitney coverings and the tent spaces
T 1,q (γ) for the Gaussian measure,” Arkiv för Matematik, vol. 50, no.
2. Springer, pp. 379–395, 2012.
ista: Maas J, Van Neerven J, Portal P. 2012. Whitney coverings and the tent spaces
T 1,q (γ) for the Gaussian measure. Arkiv för Matematik. 50(2), 379–395.
mla: Maas, Jan, et al. “Whitney Coverings and the Tent Spaces T 1,q (γ) for the
Gaussian Measure.” Arkiv För Matematik, vol. 50, no. 2, Springer, 2012,
pp. 379–95, doi:10.1007/s11512-010-0143-z.
short: J. Maas, J. Van Neerven, P. Portal, Arkiv För Matematik 50 (2012) 379–395.
date_created: 2018-12-11T11:55:52Z
date_published: 2012-10-01T00:00:00Z
date_updated: 2021-01-12T06:55:28Z
day: '01'
doi: 10.1007/s11512-010-0143-z
extern: 1
fulldoi: https://doi.org/10.1007/s11512-010-0143-z
intvolume: ' 50'
issue: '2'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1002.4911
month: '10'
oa: 1
page: 379 - 395
publication: Arkiv för Matematik
publication_status: published
publisher: Springer
publist_id: '4907'
quality_controlled: 0
status: public
title: Whitney coverings and the tent spaces T 1,q (γ) for the Gaussian measure
type: journal_article
volume: 50
year: '2012'
...
---
_id: '13407'
abstract:
- lang: eng
text: We show that diamagnetic particles can be remotely manipulated by a magnet
by the reversible adsorption of dual-responsive, light-switchable/superparamagnetic
nanoparticles down to their surface. Adsorption occurs upon exposure to UV light,
and can be reversed thermally or by ambient light. The dynamic self-assembly of
thin films of the dual-responsive nanoparticles induces attractive interactions
between diamagnetic particles. We demonstrate that catalytic amounts of the dual-responsive
nanoparticles are sufficient to magnetically guide and deliver the diamagnetic
particles to desired locations, where they can then be released by disassembling
the dynamic layers of superparamagnetic nanoparticles with visible light.
article_processing_charge: No
article_type: original
author:
- first_name: Olga
full_name: Chovnik, Olga
last_name: Chovnik
- first_name: Renata
full_name: Balgley, Renata
last_name: Balgley
- first_name: Joel R.
full_name: Goldman, Joel R.
last_name: Goldman
- first_name: Rafal
full_name: Klajn, Rafal
id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b
last_name: Klajn
citation:
ama: Chovnik O, Balgley R, Goldman JR, Klajn R. Dynamically self-assembling carriers
enable guiding of diamagnetic particles by weak magnets. Journal of the American
Chemical Society. 2012;134(48):19564-19567. doi:10.1021/ja309633v
apa: Chovnik, O., Balgley, R., Goldman, J. R., & Klajn, R. (2012). Dynamically
self-assembling carriers enable guiding of diamagnetic particles by weak magnets.
Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/ja309633v
chicago: Chovnik, Olga, Renata Balgley, Joel R. Goldman, and Rafal Klajn. “Dynamically
Self-Assembling Carriers Enable Guiding of Diamagnetic Particles by Weak Magnets.”
Journal of the American Chemical Society. American Chemical Society, 2012.
https://doi.org/10.1021/ja309633v.
ieee: O. Chovnik, R. Balgley, J. R. Goldman, and R. Klajn, “Dynamically self-assembling
carriers enable guiding of diamagnetic particles by weak magnets,” Journal
of the American Chemical Society, vol. 134, no. 48. American Chemical Society,
pp. 19564–19567, 2012.
ista: Chovnik O, Balgley R, Goldman JR, Klajn R. 2012. Dynamically self-assembling
carriers enable guiding of diamagnetic particles by weak magnets. Journal of the
American Chemical Society. 134(48), 19564–19567.
mla: Chovnik, Olga, et al. “Dynamically Self-Assembling Carriers Enable Guiding
of Diamagnetic Particles by Weak Magnets.” Journal of the American Chemical
Society, vol. 134, no. 48, American Chemical Society, 2012, pp. 19564–67,
doi:10.1021/ja309633v.
short: O. Chovnik, R. Balgley, J.R. Goldman, R. Klajn, Journal of the American Chemical
Society 134 (2012) 19564–19567.
date_created: 2023-08-01T09:47:42Z
date_published: 2012-11-26T00:00:00Z
date_updated: 2024-10-14T12:21:27Z
day: '26'
doi: 10.1021/ja309633v
extern: '1'
external_id:
pmid:
- '23181449'
fulldoi: https://doi.org/10.1021/ja309633v
intvolume: ' 134'
issue: '48'
keyword:
- Colloid and Surface Chemistry
- Biochemistry
- General Chemistry
- Catalysis
language:
- iso: eng
month: '11'
oa_version: Published Version
page: 19564-19567
pmid: 1
publication: Journal of the American Chemical Society
publication_identifier:
eissn:
- 1520-5126
issn:
- 0002-7863
publication_status: published
publisher: American Chemical Society
quality_controlled: '1'
scopus_import: '1'
status: public
title: Dynamically self-assembling carriers enable guiding of diamagnetic particles
by weak magnets
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 134
year: '2012'
...
---
_id: '13408'
abstract:
- lang: eng
text: Well-defined metallic nanobowls can be prepared by extending the concept of
a protecting group to colloidal synthesis. Magnetic nanoparticles are employed
as “protecting groups” during the galvanic replacement of silver with gold. The
replacement reaction is accompanied by spontantous dissociation of the protecting
groups, leaving behind metallic nanobowls.
article_processing_charge: No
article_type: original
author:
- first_name: Yonatan
full_name: Ridelman, Yonatan
last_name: Ridelman
- first_name: Gurvinder
full_name: Singh, Gurvinder
last_name: Singh
- first_name: Ronit
full_name: Popovitz-Biro, Ronit
last_name: Popovitz-Biro
- first_name: Sharon G.
full_name: Wolf, Sharon G.
last_name: Wolf
- first_name: Sanjib
full_name: Das, Sanjib
last_name: Das
- first_name: Rafal
full_name: Klajn, Rafal
id: 8e84690e-1e48-11ed-a02b-a1e6fb8bb53b
last_name: Klajn
citation:
ama: Ridelman Y, Singh G, Popovitz-Biro R, Wolf SG, Das S, Klajn R. Metallic nanobowls
by galvanic replacement reaction on heterodimeric nanoparticles. Small.
2012;8(5):654-660. doi:10.1002/smll.201101882
apa: Ridelman, Y., Singh, G., Popovitz-Biro, R., Wolf, S. G., Das, S., & Klajn,
R. (2012). Metallic nanobowls by galvanic replacement reaction on heterodimeric
nanoparticles. Small. Wiley. https://doi.org/10.1002/smll.201101882
chicago: Ridelman, Yonatan, Gurvinder Singh, Ronit Popovitz-Biro, Sharon G. Wolf,
Sanjib Das, and Rafal Klajn. “Metallic Nanobowls by Galvanic Replacement Reaction
on Heterodimeric Nanoparticles.” Small. Wiley, 2012. https://doi.org/10.1002/smll.201101882.
ieee: Y. Ridelman, G. Singh, R. Popovitz-Biro, S. G. Wolf, S. Das, and R. Klajn,
“Metallic nanobowls by galvanic replacement reaction on heterodimeric nanoparticles,”
Small, vol. 8, no. 5. Wiley, pp. 654–660, 2012.
ista: Ridelman Y, Singh G, Popovitz-Biro R, Wolf SG, Das S, Klajn R. 2012. Metallic
nanobowls by galvanic replacement reaction on heterodimeric nanoparticles. Small.
8(5), 654–660.
mla: Ridelman, Yonatan, et al. “Metallic Nanobowls by Galvanic Replacement Reaction
on Heterodimeric Nanoparticles.” Small, vol. 8, no. 5, Wiley, 2012, pp.
654–60, doi:10.1002/smll.201101882.
short: Y. Ridelman, G. Singh, R. Popovitz-Biro, S.G. Wolf, S. Das, R. Klajn, Small
8 (2012) 654–660.
date_created: 2023-08-01T09:47:55Z
date_published: 2012-03-12T00:00:00Z
date_updated: 2024-10-14T12:21:38Z
day: '12'
doi: 10.1002/smll.201101882
extern: '1'
external_id:
pmid:
- '22392681'
fulldoi: https://doi.org/10.1002/smll.201101882
intvolume: ' 8'
issue: '5'
keyword:
- Biomaterials
- Biotechnology
- General Materials Science
- General Chemistry
language:
- iso: eng
month: '03'
oa_version: None
page: 654-660
pmid: 1
publication: Small
publication_identifier:
eissn:
- 1613-6829
issn:
- 1613-6810
publication_status: published
publisher: Wiley
quality_controlled: '1'
scopus_import: '1'
status: public
title: Metallic nanobowls by galvanic replacement reaction on heterodimeric nanoparticles
type: journal_article
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
volume: 8
year: '2012'
...
---
_id: '1384'
abstract:
- lang: eng
text: 'Software model checking, as an undecidable problem, has three possible outcomes:
(1) the program satisfies the specification, (2) the program does not satisfy
the specification, and (3) the model checker fails. The third outcome usually
manifests itself in a space-out, time-out, or one component of the verification
tool giving up; in all of these failing cases, significant computation is performed
by the verification tool before the failure, but no result is reported. We propose
to reformulate the model-checking problem as follows, in order to have the verification
tool report a summary of the performed work even in case of failure: given a program
and a specification, the model checker returns a condition Ψ - usually a state
predicate - such that the program satisfies the specification under the condition
Ψ - that is, as long as the program does not leave the states in which Ψ is satisfied.
In our experiments, we investigated as one major application of conditional model
checking the sequential combination of model checkers with information passing.
We give the condition that one model checker produces, as input to a second conditional
model checker, such that the verification problem for the second is restricted
to the part of the state space that is not covered by the condition, i.e., the
second model checker works on the problems that the first model checker could
not solve. Our experiments demonstrate that repeated application of conditional
model checkers, passing information from one model checker to the next, can significantly
improve the verification results and performance, i.e., we can now verify programs
that we could not verify before.'
acknowledgement: This research was supported by the Canadian NSERC grant RGPIN 341819-07, the ERC Advanced Grant
QUAREM, and the Austrian Science Fund NFN RiSE.
article_number: '57'
article_processing_charge: No
arxiv: 1
author:
- first_name: Dirk
full_name: Beyer, Dirk
last_name: Beyer
- first_name: Thomas A
full_name: Henzinger, Thomas A
id: 40876CD8-F248-11E8-B48F-1D18A9856A87
last_name: Henzinger
orcid: 0000−0002−2985−7724
- first_name: Mehmet
full_name: Keremoglu, Mehmet
last_name: Keremoglu
- first_name: Philipp
full_name: Wendler, Philipp
last_name: Wendler
citation:
ama: 'Beyer D, Henzinger TA, Keremoglu M, Wendler P. Conditional model checking:
A technique to pass information between verifiers. In: Proceedings of the ACM
SIGSOFT 20th International Symposium on the Foundations of Software Engineering.
ACM; 2012. doi:10.1145/2393596.2393664'
apa: 'Beyer, D., Henzinger, T. A., Keremoglu, M., & Wendler, P. (2012). Conditional
model checking: A technique to pass information between verifiers. In Proceedings
of the ACM SIGSOFT 20th International Symposium on the Foundations of Software
Engineering. Cary, NC, USA: ACM. https://doi.org/10.1145/2393596.2393664'
chicago: 'Beyer, Dirk, Thomas A Henzinger, Mehmet Keremoglu, and Philipp Wendler.
“Conditional Model Checking: A Technique to Pass Information between Verifiers.”
In Proceedings of the ACM SIGSOFT 20th International Symposium on the Foundations
of Software Engineering. ACM, 2012. https://doi.org/10.1145/2393596.2393664.'
ieee: 'D. Beyer, T. A. Henzinger, M. Keremoglu, and P. Wendler, “Conditional model
checking: A technique to pass information between verifiers,” in Proceedings
of the ACM SIGSOFT 20th International Symposium on the Foundations of Software
Engineering, Cary, NC, USA, 2012.'
ista: 'Beyer D, Henzinger TA, Keremoglu M, Wendler P. 2012. Conditional model checking:
A technique to pass information between verifiers. Proceedings of the ACM SIGSOFT
20th International Symposium on the Foundations of Software Engineering. FSE:
Foundations of Software Engineering, 57.'
mla: 'Beyer, Dirk, et al. “Conditional Model Checking: A Technique to Pass Information
between Verifiers.” Proceedings of the ACM SIGSOFT 20th International Symposium
on the Foundations of Software Engineering, 57, ACM, 2012, doi:10.1145/2393596.2393664.'
short: D. Beyer, T.A. Henzinger, M. Keremoglu, P. Wendler, in:, Proceedings of the
ACM SIGSOFT 20th International Symposium on the Foundations of Software Engineering,
ACM, 2012.
conference:
end_date: 2012-11-16
location: Cary, NC, USA
name: 'FSE: Foundations of Software Engineering'
start_date: 2012-11-11
date_created: 2018-12-11T11:51:42Z
date_published: 2012-11-01T00:00:00Z
date_updated: 2025-06-11T08:07:37Z
day: '01'
department:
- _id: ToHe
doi: 10.1145/2393596.2393664
ec_funded: 1
external_id:
arxiv:
- '1109.6926'
fulldoi: https://doi.org/10.1145/2393596.2393664
language:
- iso: eng
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1109.6926
month: '11'
oa: 1
oa_version: Preprint
project:
- _id: 25EE3708-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '267989'
name: Quantitative Reactive Modeling
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
publication: Proceedings of the ACM SIGSOFT 20th International Symposium on the Foundations
of Software Engineering
publication_status: published
publisher: ACM
publist_id: '5826'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'Conditional model checking: A technique to pass information between verifiers'
type: conference
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2012'
...
---
_id: '1471'
abstract:
- lang: eng
text: 'Given a possibly reducible and non-reduced spectral cover π: X → C over a
smooth projective complex curve C we determine the group of connected components
of the Prym variety Prym(X/C). As an immediate application we show that the finite
group of n-torsion points of the Jacobian of C acts trivially on the cohomology
of the twisted SL n-Higgs moduli space up to the degree which is predicted by
topological mirror symmetry. In particular this yields a new proof of a result
of Harder-Narasimhan, showing that this finite group acts trivially on the cohomology
of the twisted SL n stable bundle moduli space.'
author:
- first_name: Tamas
full_name: Tamas Hausel
id: 4A0666D8-F248-11E8-B48F-1D18A9856A87
last_name: Hausel
- first_name: Christian
full_name: Pauly, Christian
last_name: Pauly
citation:
ama: Hausel T, Pauly C. Prym varieties of spectral covers. Geometry and Topology.
2012;16(3):1609-1638. doi:10.2140/gt.2012.16.1609
apa: Hausel, T., & Pauly, C. (2012). Prym varieties of spectral covers. Geometry
and Topology. University of Warwick. https://doi.org/10.2140/gt.2012.16.1609
chicago: Hausel, Tamás, and Christian Pauly. “Prym Varieties of Spectral Covers.”
Geometry and Topology. University of Warwick, 2012. https://doi.org/10.2140/gt.2012.16.1609.
ieee: T. Hausel and C. Pauly, “Prym varieties of spectral covers,” Geometry and
Topology, vol. 16, no. 3. University of Warwick, pp. 1609–1638, 2012.
ista: Hausel T, Pauly C. 2012. Prym varieties of spectral covers. Geometry and Topology.
16(3), 1609–1638.
mla: Hausel, Tamás, and Christian Pauly. “Prym Varieties of Spectral Covers.” Geometry
and Topology, vol. 16, no. 3, University of Warwick, 2012, pp. 1609–38, doi:10.2140/gt.2012.16.1609.
short: T. Hausel, C. Pauly, Geometry and Topology 16 (2012) 1609–1638.
date_created: 2018-12-11T11:52:13Z
date_published: 2012-08-01T00:00:00Z
date_updated: 2021-01-12T06:50:58Z
day: '01'
doi: 10.2140/gt.2012.16.1609
extern: 1
fulldoi: https://doi.org/10.2140/gt.2012.16.1609
intvolume: ' 16'
issue: '3'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1012.4748
month: '08'
oa: 1
page: 1609 - 1638
publication: Geometry and Topology
publication_status: published
publisher: University of Warwick
publist_id: '5726'
quality_controlled: 0
status: public
title: Prym varieties of spectral covers
type: journal_article
volume: 16
year: '2012'
...
---
_id: '1472'
abstract:
- lang: eng
text: For G = GL 2, PGL 2, SL 2 we prove that the perverse filtration associated
with the Hitchin map on the rational cohomology of the moduli space of twisted
G-Higgs bundles on a compact Riemann surface C agrees with the weight filtration
on the rational cohomology of the twisted G character variety of C when the cohomologies
are identified via non-Abelian Hodge theory. The proof is accomplished by means
of a study of the topology of the Hitchin map over the locus of integral spectral
curves.
acknowledgement: Mark Andrea A. de Cataldo was partially supported by N.S.A. and N.S.F.
Tamás Hausel was supported by a Royal Society University Research Fellowship. Luca
Migliorini was partially supported by PRIN 2007 project "Spazi di moduli e teoria
di Lie"
author:
- first_name: Mark
full_name: De Cataldo, Mark A
last_name: De Cataldo
- first_name: Tamas
full_name: Tamas Hausel
id: 4A0666D8-F248-11E8-B48F-1D18A9856A87
last_name: Hausel
- first_name: Luca
full_name: Migliorini, Luca
last_name: Migliorini
citation:
ama: 'De Cataldo M, Hausel T, Migliorini L. Topology of hitchin systems and Hodge
theory of character varieties: The case A 1. Annals of Mathematics. 2012;175(3):1329-1407.
doi:10.4007/annals.2012.175.3.7'
apa: 'De Cataldo, M., Hausel, T., & Migliorini, L. (2012). Topology of hitchin
systems and Hodge theory of character varieties: The case A 1. Annals of Mathematics.
Princeton University Press. https://doi.org/10.4007/annals.2012.175.3.7'
chicago: 'De Cataldo, Mark, Tamás Hausel, and Luca Migliorini. “Topology of Hitchin
Systems and Hodge Theory of Character Varieties: The Case A 1.” Annals of Mathematics.
Princeton University Press, 2012. https://doi.org/10.4007/annals.2012.175.3.7.'
ieee: 'M. De Cataldo, T. Hausel, and L. Migliorini, “Topology of hitchin systems
and Hodge theory of character varieties: The case A 1,” Annals of Mathematics,
vol. 175, no. 3. Princeton University Press, pp. 1329–1407, 2012.'
ista: 'De Cataldo M, Hausel T, Migliorini L. 2012. Topology of hitchin systems and
Hodge theory of character varieties: The case A 1. Annals of Mathematics. 175(3),
1329–1407.'
mla: 'De Cataldo, Mark, et al. “Topology of Hitchin Systems and Hodge Theory of
Character Varieties: The Case A 1.” Annals of Mathematics, vol. 175, no.
3, Princeton University Press, 2012, pp. 1329–407, doi:10.4007/annals.2012.175.3.7.'
short: M. De Cataldo, T. Hausel, L. Migliorini, Annals of Mathematics 175 (2012)
1329–1407.
date_created: 2018-12-11T11:52:13Z
date_published: 2012-05-01T00:00:00Z
date_updated: 2021-01-12T06:50:59Z
day: '01'
doi: 10.4007/annals.2012.175.3.7
extern: 1
fulldoi: https://doi.org/10.4007/annals.2012.175.3.7
intvolume: ' 175'
issue: '3'
main_file_link:
- open_access: '1'
url: http://arxiv.org/abs/1004.1420
month: '05'
oa: 1
page: 1329 - 1407
publication: Annals of Mathematics
publication_status: published
publisher: Princeton University Press
publist_id: '5727'
quality_controlled: 0
status: public
title: 'Topology of hitchin systems and Hodge theory of character varieties: The case
A 1'
type: journal_article
volume: 175
year: '2012'
...
---
OA_place: repository
OA_type: green
_id: '18737'
abstract:
- lang: eng
text: Supermassive black holes (SMBHs) are common in local galactic nuclei, and
SMBHs as massive as several billion solar masses already exist at redshift z =
6. These earliest SMBHs may grow by the combination of radiation-pressure-limited
accretion and mergers of stellar-mass seed BHs, left behind by the first generation
of metal-free stars, or may be formed by more rapid direct collapse of gas in
rare special environments where dense gas can accumulate without first fragmenting
into stars. This chapter offers a review of these two competing scenarios, as
well as some more exotic alternative ideas. It also briefly discusses how the
different models may be distinguished in the future by observations with JWST,
LISA and other instruments.
alternative_title:
- Astrophysics and Space Science Library
article_processing_charge: No
arxiv: 1
author:
- first_name: Zoltán
full_name: Haiman, Zoltán
id: 7c006e8c-cc0d-11ee-8322-cb904ef76f36
last_name: Haiman
orcid: 0000-0003-3633-5403
citation:
ama: 'Haiman Z. The Formation of the First Massive Black Holes. In: Wiklind T, Mobasher
B, Brumm V, eds. The First Galaxies. Berlin, Heidelberg: Springer Berlin
Heidelberg; 2012:293-341. doi:10.1007/978-3-642-32362-1_6'
apa: 'Haiman, Z. (2012). The Formation of the First Massive Black Holes. In T. Wiklind,
B. Mobasher, & V. Brumm (Eds.), The First Galaxies (pp. 293–341). Berlin,
Heidelberg: Springer Berlin Heidelberg. https://doi.org/10.1007/978-3-642-32362-1_6'
chicago: 'Haiman, Zoltán. “The Formation of the First Massive Black Holes.” In The
First Galaxies, edited by Tommy Wiklind, Bahram Mobasher, and Volker Brumm,
293–341. Berlin, Heidelberg: Springer Berlin Heidelberg, 2012. https://doi.org/10.1007/978-3-642-32362-1_6.'
ieee: 'Z. Haiman, “The Formation of the First Massive Black Holes,” in The First
Galaxies, T. Wiklind, B. Mobasher, and V. Brumm, Eds. Berlin, Heidelberg:
Springer Berlin Heidelberg, 2012, pp. 293–341.'
ista: 'Haiman Z. 2012.The Formation of the First Massive Black Holes. In: The First
Galaxies. Astrophysics and Space Science Library, , 293–341.'
mla: Haiman, Zoltán. “The Formation of the First Massive Black Holes.” The First
Galaxies, edited by Tommy Wiklind et al., Springer Berlin Heidelberg, 2012,
pp. 293–341, doi:10.1007/978-3-642-32362-1_6.
short: Z. Haiman, in:, T. Wiklind, B. Mobasher, V. Brumm (Eds.), The First Galaxies,
Springer Berlin Heidelberg, Berlin, Heidelberg, 2012, pp. 293–341.
date_created: 2025-01-03T12:30:53Z
date_published: 2012-01-01T00:00:00Z
date_updated: 2025-01-07T13:01:05Z
day: '01'
doi: 10.1007/978-3-642-32362-1_6
editor:
- first_name: Tommy
full_name: Wiklind, Tommy
last_name: Wiklind
- first_name: Bahram
full_name: Mobasher, Bahram
last_name: Mobasher
- first_name: Volker
full_name: Brumm, Volker
last_name: Brumm
extern: '1'
external_id:
arxiv:
- '1203.6075'
fulldoi: https://doi.org/10.1007/978-3-642-32362-1_6
language:
- iso: eng
main_file_link:
- open_access: '1'
url: https://arxiv.org/abs/1203.6075
month: '01'
oa: 1
oa_version: Preprint
page: 293-341
place: Berlin, Heidelberg
publication: The First Galaxies
publication_identifier:
eisbn:
- '9783642323621'
eissn:
- 2214-7985
isbn:
- '9783642323614'
issn:
- 0067-0057
publication_status: published
publisher: Springer Berlin Heidelberg
quality_controlled: '1'
scopus_import: '1'
status: public
title: The Formation of the First Massive Black Holes
type: book_chapter
user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87
year: '2012'
...
---
_id: '1972'
abstract:
- lang: eng
text: Outer membrane protein F, a major component of the Escherichia coli outer
membrane, was crystallized for the first time in lipidic mesophase of monoolein
in novel space groups, P1 and H32. Due to ease of its purification and crystallization
OmpF can be used as a benchmark protein for establishing membrane protein crystallization
in meso, as a "membrane lyzozyme" The packing of porin trimers in the
crystals of space group H32 is similar to natural outer membranes, providing the
first high-resolution insight into the close to native packing of OmpF. Surprisingly,
interaction between trimers is mediated exclusively by lipids, without direct
protein-protein contacts. Multiple ordered lipids are observed and many of them
occupy identical positions independently of the space group, identifying preferential
interaction sites of lipid acyl chains. Presence of ordered aliphatic chains close
to a positively charged area on the porin surface suggests a position for a lipopolysaccharide
binding site on the surface of the major E. coli porins.
acknowledgement: This work was funded by the Medical Research Council.
author:
- first_name: Rouslan
full_name: Efremov, Rouslan G
last_name: Efremov
- 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, Sazanov LA. Structure of Escherichia coli OmpF porin from lipidic
mesophase. Journal of Structural Biology. 2012;178(3):311-318. doi:10.1016/j.jsb.2012.03.005
apa: Efremov, R., & Sazanov, L. A. (2012). Structure of Escherichia coli OmpF
porin from lipidic mesophase. Journal of Structural Biology. Academic Press.
https://doi.org/10.1016/j.jsb.2012.03.005
chicago: Efremov, Rouslan, and Leonid A Sazanov. “Structure of Escherichia Coli
OmpF Porin from Lipidic Mesophase.” Journal of Structural Biology. Academic
Press, 2012. https://doi.org/10.1016/j.jsb.2012.03.005.
ieee: R. Efremov and L. A. Sazanov, “Structure of Escherichia coli OmpF porin from
lipidic mesophase,” Journal of Structural Biology, vol. 178, no. 3. Academic
Press, pp. 311–318, 2012.
ista: Efremov R, Sazanov LA. 2012. Structure of Escherichia coli OmpF porin from
lipidic mesophase. Journal of Structural Biology. 178(3), 311–318.
mla: Efremov, Rouslan, and Leonid A. Sazanov. “Structure of Escherichia Coli OmpF
Porin from Lipidic Mesophase.” Journal of Structural Biology, vol. 178,
no. 3, Academic Press, 2012, pp. 311–18, doi:10.1016/j.jsb.2012.03.005.
short: R. Efremov, L.A. Sazanov, Journal of Structural Biology 178 (2012) 311–318.
date_created: 2018-12-11T11:54:59Z
date_published: 2012-06-01T00:00:00Z
date_updated: 2021-01-12T06:54:26Z
day: '01'
doi: 10.1016/j.jsb.2012.03.005
extern: 1
fulldoi: https://doi.org/10.1016/j.jsb.2012.03.005
intvolume: ' 178'
issue: '3'
month: '06'
page: 311 - 318
publication: Journal of Structural Biology
publication_status: published
publisher: Academic Press
publist_id: '5109'
quality_controlled: 0
status: public
title: Structure of Escherichia coli OmpF porin from lipidic mesophase
type: journal_article
volume: 178
year: '2012'
...
---
_id: '1976'
abstract:
- lang: eng
text: 'Complex I is a key enzyme of the respiratory chain in many organisms. This
multi-protein complex with an intricate evolutionary history originated from the
unification of prebuilt modules of hydrogenases and transporters. Using recently
determined crystallographic structures of complex I we reanalyzed evolutionarily
related complexes that couple oxidoreduction to trans-membrane ion translocation.
Our analysis points to the previously unnoticed structural homology of the electron
input module of formate dehydrogenlyases and subunit NuoG of complex I. We also
show that all related to complex I hydrogenases likely operate via a conformation
driven mechanism with structural changes generated in the conserved coupling site
located at the interface of subunits NuoB/D/H. The coupling apparently originated
once in evolutionary history, together with subunit NuoH joining hydrogenase and
transport modules. Analysis of quinone oxidoreduction properties and the structure
of complex I allows us to suggest a fully reversible coupling mechanism. Our model
predicts that: 1) proton access to the ketone groups of the bound quinone is rigorously
controlled by the protein, 2) the negative electric charge of the anionic ubiquinol
head group is a major driving force for conformational changes.'
acknowledgement: The work in authors' laboratory was funded by the Medical Research
Council.
author:
- first_name: Rouslan
full_name: Efremov, Rouslan G
last_name: Efremov
- 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, Sazanov LA. The coupling mechanism of respiratory complex i - A
structural and evolutionary perspective. Biochimica et Biophysica Acta - Bioenergetics.
2012;1817(10):1785-1795. doi:10.1016/j.bbabio.2012.02.015
apa: Efremov, R., & Sazanov, L. A. (2012). The coupling mechanism of respiratory
complex i - A structural and evolutionary perspective. Biochimica et Biophysica
Acta - Bioenergetics. Elsevier. https://doi.org/10.1016/j.bbabio.2012.02.015
chicago: Efremov, Rouslan, and Leonid A Sazanov. “The Coupling Mechanism of Respiratory
Complex i - A Structural and Evolutionary Perspective.” Biochimica et Biophysica
Acta - Bioenergetics. Elsevier, 2012. https://doi.org/10.1016/j.bbabio.2012.02.015.
ieee: R. Efremov and L. A. Sazanov, “The coupling mechanism of respiratory complex
i - A structural and evolutionary perspective,” Biochimica et Biophysica Acta
- Bioenergetics, vol. 1817, no. 10. Elsevier, pp. 1785–1795, 2012.
ista: Efremov R, Sazanov LA. 2012. The coupling mechanism of respiratory complex
i - A structural and evolutionary perspective. Biochimica et Biophysica Acta -
Bioenergetics. 1817(10), 1785–1795.
mla: Efremov, Rouslan, and Leonid A. Sazanov. “The Coupling Mechanism of Respiratory
Complex i - A Structural and Evolutionary Perspective.” Biochimica et Biophysica
Acta - Bioenergetics, vol. 1817, no. 10, Elsevier, 2012, pp. 1785–95, doi:10.1016/j.bbabio.2012.02.015.
short: R. Efremov, L.A. Sazanov, Biochimica et Biophysica Acta - Bioenergetics 1817
(2012) 1785–1795.
date_created: 2018-12-11T11:55:00Z
date_published: 2012-10-01T00:00:00Z
date_updated: 2019-04-26T07:22:06Z
day: '01'
doi: 10.1016/j.bbabio.2012.02.015
extern: 1
fulldoi: https://doi.org/10.1016/j.bbabio.2012.02.015
intvolume: ' 1817'
issue: '10'
month: '10'
page: 1785 - 1795
publication: Biochimica et Biophysica Acta - Bioenergetics
publication_status: published
publisher: Elsevier
publist_id: '5108'
quality_controlled: 0
status: public
title: The coupling mechanism of respiratory complex i - A structural and evolutionary
perspective
type: review
volume: 1817
year: '2012'
...
---
_id: '492'
abstract:
- lang: eng
text: 'Background: Characterizing root system architecture (RSA) is essential to
understanding the development and function of vascular plants. Identifying RSA-associated
genes also represents an underexplored opportunity for crop improvement. Software
tools are needed to accelerate the pace at which quantitative traits of RSA are
estimated from images of root networks.Results: We have developed GiA Roots (General
Image Analysis of Roots), a semi-automated software tool designed specifically
for the high-throughput analysis of root system images. GiA Roots includes user-assisted
algorithms to distinguish root from background and a fully automated pipeline
that extracts dozens of root system phenotypes. Quantitative information on each
phenotype, along with intermediate steps for full reproducibility, is returned
to the end-user for downstream analysis. GiA Roots has a GUI front end and a command-line
interface for interweaving the software into large-scale workflows. GiA Roots
can also be extended to estimate novel phenotypes specified by the end-user.Conclusions:
We demonstrate the use of GiA Roots on a set of 2393 images of rice roots representing
12 genotypes from the species Oryza sativa. We validate trait measurements against
prior analyses of this image set that demonstrated that RSA traits are likely
heritable and associated with genotypic differences. Moreover, we demonstrate
that GiA Roots is extensible and an end-user can add functionality so that GiA
Roots can estimate novel RSA traits. In summary, we show that the software can
function as an efficient tool as part of a workflow to move from large numbers
of root images to downstream analysis.'
article_number: '116'
article_processing_charge: No
author:
- first_name: Taras
full_name: Galkovskyi, Taras
last_name: Galkovskyi
- first_name: Yuriy
full_name: Mileyko, Yuriy
last_name: Mileyko
- first_name: Alexander
full_name: Bucksch, Alexander
last_name: Bucksch
- first_name: Brad
full_name: Moore, Brad
last_name: Moore
- first_name: Olga
full_name: Symonova, Olga
id: 3C0C7BC6-F248-11E8-B48F-1D18A9856A87
last_name: Symonova
orcid: 0000-0003-2012-9947
- first_name: Charles
full_name: Price, Charles
last_name: Price
- first_name: Chrostopher
full_name: Topp, Chrostopher
last_name: Topp
- first_name: Anjali
full_name: Iyer Pascuzzi, Anjali
last_name: Iyer Pascuzzi
- first_name: Paul
full_name: Zurek, Paul
last_name: Zurek
- first_name: Suqin
full_name: Fang, Suqin
last_name: Fang
- first_name: John
full_name: Harer, John
last_name: Harer
- first_name: Philip
full_name: Benfey, Philip
last_name: Benfey
- first_name: Joshua
full_name: Weitz, Joshua
last_name: Weitz
citation:
ama: 'Galkovskyi T, Mileyko Y, Bucksch A, et al. GiA Roots: Software for the high
throughput analysis of plant root system architecture. BMC Plant Biology.
2012;12. doi:10.1186/1471-2229-12-116'
apa: 'Galkovskyi, T., Mileyko, Y., Bucksch, A., Moore, B., Symonova, O., Price,
C., … Weitz, J. (2012). GiA Roots: Software for the high throughput analysis of
plant root system architecture. BMC Plant Biology. BioMed Central. https://doi.org/10.1186/1471-2229-12-116'
chicago: 'Galkovskyi, Taras, Yuriy Mileyko, Alexander Bucksch, Brad Moore, Olga
Symonova, Charles Price, Chrostopher Topp, et al. “GiA Roots: Software for the
High Throughput Analysis of Plant Root System Architecture.” BMC Plant Biology.
BioMed Central, 2012. https://doi.org/10.1186/1471-2229-12-116.'
ieee: 'T. Galkovskyi et al., “GiA Roots: Software for the high throughput
analysis of plant root system architecture,” BMC Plant Biology, vol. 12.
BioMed Central, 2012.'
ista: 'Galkovskyi T, Mileyko Y, Bucksch A, Moore B, Symonova O, Price C, Topp C,
Iyer Pascuzzi A, Zurek P, Fang S, Harer J, Benfey P, Weitz J. 2012. GiA Roots:
Software for the high throughput analysis of plant root system architecture. BMC
Plant Biology. 12, 116.'
mla: 'Galkovskyi, Taras, et al. “GiA Roots: Software for the High Throughput Analysis
of Plant Root System Architecture.” BMC Plant Biology, vol. 12, 116, BioMed
Central, 2012, doi:10.1186/1471-2229-12-116.'
short: T. Galkovskyi, Y. Mileyko, A. Bucksch, B. Moore, O. Symonova, C. Price, C.
Topp, A. Iyer Pascuzzi, P. Zurek, S. Fang, J. Harer, P. Benfey, J. Weitz, BMC
Plant Biology 12 (2012).
date_created: 2018-12-11T11:46:46Z
date_published: 2012-07-26T00:00:00Z
date_updated: 2025-09-30T08:36:34Z
day: '26'
ddc:
- '005'
- '514'
- '516'
doi: 10.1186/1471-2229-12-116
extern: '1'
external_id:
isi:
- '000309114300001'
file:
- access_level: open_access
checksum: 0c629e36acd5f2878ff7dd088d67d494
content_type: application/pdf
creator: system
date_created: 2018-12-12T10:12:35Z
date_updated: 2020-07-14T12:46:35Z
file_id: '4953'
file_name: IST-2018-946-v1+1_2012_Symonova_GiA_Roots.pdf
file_size: 1691436
relation: main_file
file_date_updated: 2020-07-14T12:46:35Z
fulldoi: https://doi.org/10.1186/1471-2229-12-116
has_accepted_license: '1'
intvolume: ' 12'
isi: 1
language:
- iso: eng
license: https://creativecommons.org/licenses/by/4.0/
month: '07'
oa: 1
oa_version: Published Version
publication: BMC Plant Biology
publication_status: published
publisher: BioMed Central
publist_id: '7328'
pubrep_id: '946'
quality_controlled: '1'
scopus_import: '1'
status: public
title: 'GiA Roots: Software for the high throughput analysis of plant root system
architecture'
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: journal_article
user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345
volume: 12
year: '2012'
...
---
_id: '493'
abstract:
- lang: eng
text: 'The BCI competition IV stands in the tradition of prior BCI competitions
that aim to provide high quality neuroscientific data for open access to the scientific
community. As experienced already in prior competitions not only scientists from
the narrow field of BCI compete, but scholars with a broad variety of backgrounds
and nationalities. They include high specialists as well as students.The goals
of all BCI competitions have always been to challenge with respect to novel paradigms
and complex data. We report on the following challenges: (1) asynchronous data,
(2) synthetic, (3) multi-class continuous data, (4) sessionto-session transfer,
(5) directionally modulated MEG, (6) finger movements recorded by ECoG. As after
past competitions, our hope is that winning entries may enhance the analysis methods
of future BCIs.'
acknowledgement: "The studies were in part or completely supported by the Bundesministerium
für Bildung und Forschung (BMBF), Fkz 01IB001A, 01GQ0850, by the German Science
Foundation (DFG, contract MU 987/3-2), by the European ICT Programme Projects FP7-224631
and 216886, the World Class University Program through the National Research Foundation
of Korea funded by the Ministry of Education, Science, and Technology (Grant R31-10008),
the US Army Research Office [W911NF-08-1-0216 (Gerwin Schalk) and W911NF-07-1-0415
(Gerwin Schalk)] and the NIH [EB006356 (Gerwin Schalk) and EB000856 (Gerwin Schalk),
the WIN-Kolleg of the Heidelberg Academy of Sciences and Humanities, German Federal
Ministry of Education and Research grants 01GQ0420, 01GQ0761, 01GQ0762, and 01GQ0830,
German Research Foundation grants 550/B5 and C6, and by a scholarship from the German
National Academic Foundation. This paper only reflects the authors’ views and funding
agencies are not liable for any use that may be made of the information contained
herein.\r\n"
article_number: '55'
article_processing_charge: No
author:
- first_name: Michael
full_name: Tangermann, Michael
last_name: Tangermann
- first_name: Klaus
full_name: Müller, Klaus
last_name: Müller
- first_name: Ad
full_name: Aertsen, Ad
last_name: Aertsen
- first_name: Niels
full_name: Birbaumer, Niels
last_name: Birbaumer
- first_name: Christoph
full_name: Braun, Christoph
last_name: Braun
- first_name: Clemens
full_name: Brunner, Clemens
last_name: Brunner
- first_name: Robert
full_name: Leeb, Robert
last_name: Leeb
- first_name: Carsten
full_name: Mehring, Carsten
last_name: Mehring
- first_name: Kai
full_name: Miller, Kai
last_name: Miller
- first_name: Gernot
full_name: Müller Putz, Gernot
last_name: Müller Putz
- first_name: Guido
full_name: Nolte, Guido
last_name: Nolte
- first_name: Gert
full_name: Pfurtscheller, Gert
last_name: Pfurtscheller
- first_name: Hubert
full_name: Preissl, Hubert
last_name: Preissl
- first_name: Gerwin
full_name: Schalk, Gerwin
last_name: Schalk
- 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: Stephan
full_name: Waldert, Stephan
last_name: Waldert
- first_name: Benjamin
full_name: Blankertz, Benjamin
last_name: Blankertz
citation:
ama: Tangermann M, Müller K, Aertsen A, et al. Review of the BCI competition IV.
Frontiers in Neuroscience. 2012;6. doi:10.3389/fnins.2012.00055
apa: Tangermann, M., Müller, K., Aertsen, A., Birbaumer, N., Braun, C., Brunner,
C., … Blankertz, B. (2012). Review of the BCI competition IV. Frontiers in
Neuroscience. Frontiers Research Foundation. https://doi.org/10.3389/fnins.2012.00055
chicago: Tangermann, Michael, Klaus Müller, Ad Aertsen, Niels Birbaumer, Christoph
Braun, Clemens Brunner, Robert Leeb, et al. “Review of the BCI Competition IV.”
Frontiers in Neuroscience. Frontiers Research Foundation, 2012. https://doi.org/10.3389/fnins.2012.00055.
ieee: M. Tangermann et al., “Review of the BCI competition IV,” Frontiers
in Neuroscience, vol. 6. Frontiers Research Foundation, 2012.
ista: Tangermann M, Müller K, Aertsen A, Birbaumer N, Braun C, Brunner C, Leeb R,
Mehring C, Miller K, Müller Putz G, Nolte G, Pfurtscheller G, Preissl H, Schalk
G, Schlögl A, Vidaurre C, Waldert S, Blankertz B. 2012. Review of the BCI competition
IV. Frontiers in Neuroscience. 6, 55.
mla: Tangermann, Michael, et al. “Review of the BCI Competition IV.” Frontiers
in Neuroscience, vol. 6, 55, Frontiers Research Foundation, 2012, doi:10.3389/fnins.2012.00055.
short: M. Tangermann, K. Müller, A. Aertsen, N. Birbaumer, C. Braun, C. Brunner,
R. Leeb, C. Mehring, K. Miller, G. Müller Putz, G. Nolte, G. Pfurtscheller, H.
Preissl, G. Schalk, A. Schlögl, C. Vidaurre, S. Waldert, B. Blankertz, Frontiers
in Neuroscience 6 (2012).
date_created: 2018-12-11T11:46:46Z
date_published: 2012-07-13T00:00:00Z
date_updated: 2025-09-30T08:35:59Z
day: '13'
ddc:
- '004'
department:
- _id: ScienComp
- _id: PeJo
doi: 10.3389/fnins.2012.00055
external_id:
isi:
- '000209165300066'
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month: '07'
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publication: Frontiers in Neuroscience
publication_status: published
publisher: Frontiers Research Foundation
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title: Review of the BCI competition IV
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---
_id: '495'
abstract:
- lang: eng
text: An automaton with advice is a finite state automaton which has access to an
additional fixed infinite string called an advice tape. We refine the Myhill-Nerode
theorem to characterize the languages of finite strings that are accepted by automata
with advice. We do the same for tree automata with advice.
alternative_title:
- EPTCS
author:
- first_name: Alex
full_name: Kruckman, Alex
last_name: Kruckman
- first_name: Sasha
full_name: Rubin, Sasha
id: 2EC51194-F248-11E8-B48F-1D18A9856A87
last_name: Rubin
- first_name: John
full_name: Sheridan, John
last_name: Sheridan
- first_name: Ben
full_name: Zax, Ben
last_name: Zax
citation:
ama: 'Kruckman A, Rubin S, Sheridan J, Zax B. A Myhill Nerode theorem for automata
with advice. In: Proceedings GandALF 2012. Vol 96. Open Publishing Association;
2012:238-246. doi:10.4204/EPTCS.96.18'
apa: 'Kruckman, A., Rubin, S., Sheridan, J., & Zax, B. (2012). A Myhill Nerode
theorem for automata with advice. In Proceedings GandALF 2012 (Vol. 96,
pp. 238–246). Napoli, Italy: Open Publishing Association. https://doi.org/10.4204/EPTCS.96.18'
chicago: Kruckman, Alex, Sasha Rubin, John Sheridan, and Ben Zax. “A Myhill Nerode
Theorem for Automata with Advice.” In Proceedings GandALF 2012, 96:238–46.
Open Publishing Association, 2012. https://doi.org/10.4204/EPTCS.96.18.
ieee: A. Kruckman, S. Rubin, J. Sheridan, and B. Zax, “A Myhill Nerode theorem for
automata with advice,” in Proceedings GandALF 2012, Napoli, Italy, 2012,
vol. 96, pp. 238–246.
ista: 'Kruckman A, Rubin S, Sheridan J, Zax B. 2012. A Myhill Nerode theorem for
automata with advice. Proceedings GandALF 2012. GandALF: Games, Automata, Logics
and Formal Verification, EPTCS, vol. 96, 238–246.'
mla: Kruckman, Alex, et al. “A Myhill Nerode Theorem for Automata with Advice.”
Proceedings GandALF 2012, vol. 96, Open Publishing Association, 2012, pp.
238–46, doi:10.4204/EPTCS.96.18.
short: A. Kruckman, S. Rubin, J. Sheridan, B. Zax, in:, Proceedings GandALF 2012,
Open Publishing Association, 2012, pp. 238–246.
conference:
end_date: 2012-09-08
location: Napoli, Italy
name: 'GandALF: Games, Automata, Logics and Formal Verification'
start_date: 2012-09-06
corr_author: '1'
date_created: 2018-12-11T11:46:47Z
date_published: 2012-10-07T00:00:00Z
date_updated: 2024-10-09T20:55:00Z
day: '07'
ddc:
- '004'
department:
- _id: KrCh
doi: 10.4204/EPTCS.96.18
ec_funded: 1
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checksum: 56277f95edc9d531fa3bdc5f9579fda8
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creator: system
date_created: 2018-12-12T10:15:31Z
date_updated: 2020-07-14T12:46:35Z
file_id: '5152'
file_name: IST-2018-944-v1+1_2012_Rubin_A_Myhill.pdf
file_size: 97736
relation: main_file
file_date_updated: 2020-07-14T12:46:35Z
fulldoi: https://doi.org/10.4204/EPTCS.96.18
has_accepted_license: '1'
intvolume: ' 96'
language:
- iso: eng
month: '10'
oa: 1
oa_version: Published Version
page: 238 - 246
project:
- _id: 25832EC2-B435-11E9-9278-68D0E5697425
call_identifier: FWF
grant_number: S 11407_N23
name: Rigorous Systems Engineering
- _id: 2581B60A-B435-11E9-9278-68D0E5697425
call_identifier: FP7
grant_number: '279307'
name: 'Quantitative Graph Games: Theory and Applications'
publication: Proceedings GandALF 2012
publication_status: published
publisher: Open Publishing Association
publist_id: '7325'
pubrep_id: '944'
quality_controlled: '1'
scopus_import: 1
status: public
title: A Myhill Nerode theorem for automata with advice
tmp:
image: /images/cc_by.png
legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode
name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
short: CC BY (4.0)
type: conference
user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87
volume: 96
year: '2012'
...