50 research outputs found
Computing the Rank Profile Matrix
The row (resp. column) rank profile of a matrix describes the staircase shape
of its row (resp. column) echelon form. In an ISSAC'13 paper, we proposed a
recursive Gaussian elimination that can compute simultaneously the row and
column rank profiles of a matrix as well as those of all of its leading
sub-matrices, in the same time as state of the art Gaussian elimination
algorithms. Here we first study the conditions making a Gaus-sian elimination
algorithm reveal this information. Therefore, we propose the definition of a
new matrix invariant, the rank profile matrix, summarizing all information on
the row and column rank profiles of all the leading sub-matrices. We also
explore the conditions for a Gaussian elimination algorithm to compute all or
part of this invariant, through the corresponding PLUQ decomposition. As a
consequence, we show that the classical iterative CUP decomposition algorithm
can actually be adapted to compute the rank profile matrix. Used, in a Crout
variant, as a base-case to our ISSAC'13 implementation, it delivers a
significant improvement in efficiency. Second, the row (resp. column) echelon
form of a matrix are usually computed via different dedicated triangular
decompositions. We show here that, from some PLUQ decompositions, it is
possible to recover the row and column echelon forms of a matrix and of any of
its leading sub-matrices thanks to an elementary post-processing algorithm
Computing a Lattice Basis Revisited
International audienc
Processing Succinct Matrices and Vectors
We study the complexity of algorithmic problems for matrices that are
represented by multi-terminal decision diagrams (MTDD). These are a variant of
ordered decision diagrams, where the terminal nodes are labeled with arbitrary
elements of a semiring (instead of 0 and 1). A simple example shows that the
product of two MTDD-represented matrices cannot be represented by an MTDD of
polynomial size. To overcome this deficiency, we extended MTDDs to MTDD_+ by
allowing componentwise symbolic addition of variables (of the same dimension)
in rules. It is shown that accessing an entry, equality checking, matrix
multiplication, and other basic matrix operations can be solved in polynomial
time for MTDD_+-represented matrices. On the other hand, testing whether the
determinant of a MTDD-represented matrix vanishes PSPACE$-complete, and the
same problem is NP-complete for MTDD_+-represented diagonal matrices. Computing
a specific entry in a product of MTDD-represented matrices is #P-complete.Comment: An extended abstract of this paper will appear in the Proceedings of
CSR 201
Structure of the Afferent Terminals in Terminal Ganglion of a Cricket and Persistent Homology
We use topological data analysis to investigate the three dimensional spatial structure of the locus of afferent neuron terminals in crickets Acheta domesticus. Each afferent neuron innervates a filiform hair positioned on a cercus: a protruding appendage at the rear of the animal. The hairs transduce air motion to the neuron signal that is used by a cricket to respond to the environment. We stratify the hairs (and the corresponding afferent terminals) into classes depending on hair length, along with position. Our analysis uncovers significant structure in the relative position of these terminal classes and suggests the functional relevance of this structure. Our method is very robust to the presence of significant experimental and developmental noise. It can be used to analyze a wide range of other point cloud data sets
Class A Orphans in GtoPdb v.2023.1
Table 1 lists a number of putative GPCRs identified by NC-IUPHAR [161], for which preliminary evidence for an endogenous ligand has been published, or for which there exists a potential link to a disease, or disorder. These GPCRs have recently been reviewed in detail [121]. The GPCRs in Table 1 are all Class A, rhodopsin-like GPCRs. Class A orphan GPCRs not listed in Table 1 are putative GPCRs with as-yet unidentified endogenous ligands.Table 1: Class A orphan GPCRs with putative endogenous ligands GPR3GPR4GPR6GPR12GPR15GPR17GPR20 GPR22GPR26GPR31GPR34GPR35GPR37GPR39 GPR50GPR63GPR65GPR68GPR75GPR84GPR87 GPR88GPR132GPR149GPR161GPR183LGR4LGR5 LGR6MAS1MRGPRDMRGPRX1MRGPRX2P2RY10TAAR2 In addition the orphan receptors GPR18, GPR55 and GPR119 which are reported to respond to endogenous agents analogous to the endogenous cannabinoid ligands have been grouped together (GPR18, GPR55 and GPR119)
Class A Orphans (version 2020.5) in the IUPHAR/BPS Guide to Pharmacology Database
Table 1 lists a number of putative GPCRs identified by NC-IUPHAR [194], for which preliminary evidence for an endogenous ligand has been published, or for which there exists a potential link to a disease, or disorder. These GPCRs have recently been reviewed in detail [150]. The GPCRs in Table 1 are all Class A, rhodopsin-like GPCRs. Class A orphan GPCRs not listed in Table 1 are putative GPCRs with as-yet unidentified endogenous ligands.Table 1: Class A orphan GPCRs with putative endogenous ligands
GPR3
GPR4
GPR6
GPR12
GPR15
GPR17
GPR20
GPR22
GPR26
GPR31
GPR34
GPR35
GPR37
GPR39
GPR50
GPR63
GRP65
GPR68
GPR75
GPR84
GPR87
GPR88
GPR132
GPR149
GPR161
GPR183
LGR4
LGR5
LGR6
MAS1
MRGPRD
MRGPRX1
MRGPRX2
P2RY10
TAAR2
In addition the orphan receptors GPR18, GPR55 and GPR119 which are reported to respond to endogenous agents analogous to the endogenous cannabinoid ligands have been grouped together (GPR18, GPR55 and GPR119)
Class A Orphans in GtoPdb v.2022.3
Table 1 lists a number of putative GPCRs identified by NC-IUPHAR [161], for which preliminary evidence for an endogenous ligand has been published, or for which there exists a potential link to a disease, or disorder. These GPCRs have recently been reviewed in detail [121]. The GPCRs in Table 1 are all Class A, rhodopsin-like GPCRs. Class A orphan GPCRs not listed in Table 1 are putative GPCRs with as-yet unidentified endogenous ligands.Table 1: Class A orphan GPCRs with putative endogenous ligands GPR3GPR4GPR6GPR12GPR15GPR17GPR20 GPR22GPR26GPR31GPR34GPR35GPR37GPR39 GPR50GPR63GPR65GPR68GPR75GPR84GPR87 GPR88GPR132GPR149GPR161GPR183LGR4LGR5 LGR6MAS1MRGPRDMRGPRX1MRGPRX2P2RY10TAAR2 In addition the orphan receptors GPR18, GPR55 and GPR119 which are reported to respond to endogenous agents analogous to the endogenous cannabinoid ligands have been grouped together (GPR18, GPR55 and GPR119)
Class A Orphans in GtoPdb v.2021.3
Table 1 lists a number of putative GPCRs identified by NC-IUPHAR [161], for which preliminary evidence for an endogenous ligand has been published, or for which there exists a potential link to a disease, or disorder. These GPCRs have recently been reviewed in detail [121]. The GPCRs in Table 1 are all Class A, rhodopsin-like GPCRs. Class A orphan GPCRs not listed in Table 1 are putative GPCRs with as-yet unidentified endogenous ligands.Table 1: Class A orphan GPCRs with putative endogenous ligands GPR3GPR4GPR6GPR12GPR15GPR17GPR20 GPR22GPR26GPR31GPR34GPR35GPR37GPR39 GPR50GPR63GRP65GPR68GPR75GPR84GPR87 GPR88GPR132GPR149GPR161GPR183LGR4LGR5 LGR6MAS1MRGPRDMRGPRX1MRGPRX2P2RY10TAAR2 In addition the orphan receptors GPR18, GPR55 and GPR119 which are reported to respond to endogenous agents analogous to the endogenous cannabinoid ligands have been grouped together (GPR18, GPR55 and GPR119)
Class A Orphans (version 2019.4) in the IUPHAR/BPS Guide to Pharmacology Database
Table 1 lists a number of putative GPCRs identified by NC-IUPHAR [191], for which preliminary evidence for an endogenous ligand has been published, or for which there exists a potential link to a disease, or disorder. These GPCRs have recently been reviewed in detail [148]. The GPCRs in Table 1 are all Class A, rhodopsin-like GPCRs. Class A orphan GPCRs not listed in Table 1 are putative GPCRs with as-yet unidentified endogenous ligands.Table 1: Class A orphan GPCRs with putative endogenous ligands GPR3GPR4GPR6GPR12GPR15GPR17GPR20 GPR22GPR26GPR31GPR34GPR35GPR37GPR39 GPR50GPR63GRP65GPR68GPR75GPR84GPR87 GPR88GPR132GPR149GPR161GPR183LGR4LGR5 LGR6MAS1MRGPRDMRGPRX1MRGPRX2P2RY10TAAR2 In addition the orphan receptors GPR18, GPR55 and GPR119 which are reported to respond to endogenous agents analogous to the endogenous cannabinoid ligands have been grouped together (GPR18, GPR55 and GPR119)
Rapid PCR analysis of the St14 (DXS52) VNTR.
Introduction: Some segments of the human genome exhibit polymorphism due to a variable number of tandem repeats (VNTR). The enzymatic amplification of VNTR loci can allow for rapid analysis and discrimination of closely sized alleles. We report a PCR-based method for analysis of the highl