Biomedical subjects

J Demongeot

Publications and source records attributed to J Demongeot.

At least 19 recordsLinked to original sources

PubMed2006

What is the biological basis of pattern formation of skin lesions?

Pattern recognition is at the heart of clinical dermatology and dermatopathology. Yet, while every practitioner of the art of dermatological diagnosis recognizes the supreme value of diagnostic cues provided by defined patterns of 'efflorescences', few contemplate on the biological basis of pattern formation in and of skin lesions. Vice versa, developmental and theoretical biologists, who would be best prepared to study skin lesion patterns, are lamentably slow to discover this field as a uniquely instructive testing ground for probing theoretical concepts on pattern generation in the human system. As a result, we have at best scraped the surface of understanding the biological basis of pattern formation of skin lesions, and widely open questions dominate over definitive answer. As a symmetry-breaking force, pattern formation represents one of the most fundamental principles that nature enlists for system organization. Thus, the peculiar and often characteristic arrangements that skin lesions display provide a unique opportunity to reflect upon--and to experimentally dissect--the powerful organizing principles at the crossroads of developmental, skin and theoretical biology, genetics, and clinical dermatology that underlie these--increasingly less enigmatic--phenomena. The current 'Controversies' feature offers a range of different perspectives on how pattern formation of skin lesions can be approached. With this, we hope to encourage more systematic interdisciplinary research efforts geared at unraveling the many unsolved, yet utterly fascinating mysteries of dermatological pattern formation. In short: never a dull pattern!

Algorithms↗

PubMed2004

Mathematical methods for inferring regulatory networks interactions: application to genetic regulation.

This paper deals with the problem of reconstruction of the intergenic interaction graph from the raw data of genetic co-expression coming with new technologies of bio-arrays (DMA-arrays, protein-arrays, etc.). These new imaging devices in general only give information about the asymptotical part (fixed configurations of co-expression or limit cycles of such configurations) of the dynamical evolution of the regulatory networks (genetic and/or proteic) underlying the functioning of living systems. Extracting the casual structure and interaction coefficients of a gene interaction network from the observed configurations is a complex problem. But if all the fixed configurations are supposedly observed and if they are factorizable into two or more subsets of values, then the interaction graph possesses as many connected components as the number of factors and the solution is obtained in polynomial time. This new result allows us for example to partly solve the topology of the genetic regulatory network ruling the flowering in Arabidopsis thaliana .

Algorithms↗

PubMed2004

A logical (discrete) formulation for the storage and recall of environmental signals in plants.

When subjected to an appropriate asymmetric stimulus, seedlings of Bidens pilosa L. "store" a symmetry-breaking instruction that will finally take effect (in the form of a differential growth of the cotyledonary buds) only if the plants are in a state in which they can "recall" this information. The ability of the plants to recall the stored symmetry-breaking instruction may be switched "on" or "off" by the application of a variety of stimuli. Although its detailed phenomenology is rather complicated, the overall behaviour of the plant storage/recall system can be modelled by use of an asynchronous, logical (discrete) description involving positive and negative feedback circuits, which are required for the existence of multi-stationarity and stability, respectively. The state tables, as used in this formalism, give a concise and easy-to-handle description of the evolution of the system and make it particularly easy to determine its stable states. This modelling approach may be extended to the formulation of many other experimental systems.

Biological Clocks↗

PubMed2001

HC Forum: a web site based on an international human cytogenetic database.

Familial structural rearrangements of chromosomes represent a factor of malformation risk that could vary over a large range, making genetic counseling difficult. However, they also represent a powerful tool for increasing knowledge of the genome, particularly by studying breakpoints and viable imbalances of the genome. We have developed a collaborative database that now includes data on more than 4100 families, from which we have developed a web site called HC Forum (http://HCForum.imag.fr). It offers geneticists assistance in diagnosis and in genetic counseling by assessing the malformation risk with statistical models. For researchers, interactive interfaces exhibit the distribution of chromosomal breakpoints and of the genome regions observed at birth in trisomy or in monosomy. Dedicated tools including an interactive pedigree allow electronic submission of data, which will be anonymously shown in a forum for discussions. After validation, data are definitively registered in the database with the email of the sender, allowing direct location of biological material. Thus HC Forum constitutes a link between diagnosis laboratories and genome research centers, and after 1 year, more than 700 users from about 40 different countries already exist.

Chromosome Aberrations↗

PubMed2000

A mathematical model for storage and recall functions in plants.

In plantlets of Bidens pilosa L., under severely limiting environmental conditions the growth of the buds at the axil of the cotyledons (cotyledonary buds) is asymmetric (i.e. one of the buds starts growing before the other one), this asymmetry being oriented by the pricking of one of the cotyledons (i.e. pricking one cotyledon increases the probability that the bud at the axil of the other cotyledon be the first to start to grow). As long as the plant apex (i.e. the terminal bud) is present, the growth of the cotyledonary buds is inhibited (apical dominance), but the souvenir of the asymmetric message caused by sub-optimal environmental conditions and the orientation given by the cotyledon pricking is always present in the plant and can be revealed by removing the apex. Depending on the conditions for removing the plant apex and/or on the application of a variety of symmetrical treatments (e.g. thermal treatment, symmetrical pricking treatments, etc.) the stored asymmetry will either take effect (the bud at the axil of the non-pricked cotyledon will be the first to start to grow more often than the other one) or not (both buds will have equal chance to be the first to start to grow). This has been termed 'recalling' the stored asymmetry. By combining several successive symmetrical treatments, it is possible to reversibly switch on and off the recall function several times. This recall of the stored plant-asymmetry is analogous to the evocation function of a memory system. In this paper, we will present first a discrete logical version of the observed interaction structure between the main components of the bud growth system, then a continuous differential version, taking into account the main features of the observed experimental reality and trying to explain this phenomenology. The interaction structure of both the discrete and the continuous models presents similar positive and negative feedback circuits, necessary condition for observing multistationarity and stability.

Environment↗

PubMed2000

Positive feedback circuits and memory.

The concept of regulatory feedback circuit refers to oriented cyclic interactions between elements of a system. There are two classes of circuits, positive and negative, whose properties are in striking contrast. Positive circuits are a prerequisite for the occurrence of multiple steady states (multistationarity), and hence, they are involved in all processes showing hysteresis or memory. Endogenous or exogenous perturbations can lead the system to exhibit or to evoke one particular stable regime. The role of positive circuits in cell differentiation and in immunology is well documented. Negative circuits are involved in homeostatic regulation, with or without oscillations. The aim of this paper is to show: a) that positive circuits account for many features of memory stricto sensu (i.e., neural memory and mnesic evocation) as well as largo sensu (e.g. differentiation or immunological memory); and b) that simple combinations of positive and negative circuits provide powerful regulatory modules, which can also be associated in batteries. These entities have vast dynamical possibilities in the field of neurobiology, as well as in the fields of differentiation and immunology. Here we consider a universal minimal regulatory module, for which we suggest to adopt the term 'logical regulon', which can be considered as an atom of Jacob's integron. It comprises a positive and a negative circuit in its interaction matrix, and we recall the main results related to the simultaneous presence of these circuits. Finally, we give three applications of this type of interaction matrix. The first two deal with the coexistence of multiple stable steady states and periodicity in differentiation and in an immunological system showing hysteretic properties. The third deals with the dual problems of synchronization and desynchronization of a neural model for hippocampus memory evocation processes.

Cell Differentiation↗

PubMed2000

Cooperation of selection and meiotic mechanisms in the production of imbalances in reciprocal translocations.

We have used data from chromosomally unbalanced offspring observed at birth, as well as data from sperm chromosome analysis, to study the meiotic segregation of reciprocal translocations. Using data from a total of 1,597 unbalanced children, we have observed an excess in maternal origin for all modes of imbalance. This excess is particularly marked for the 3:1 unbalanced mode, for which we have also observed a maternal age effect, indicating a close relationship with autosomal trisomies. In addition, a statistical analysis of data from 34 different published studies using sperm chromosome analysis has demonstrated that factors which, for reasons of viability, produce a predisposition for a particular mode of imbalance at birth also appear to favor meiotic production of this type of imbalance. Thus the production of unbalanced gametes of a particular type is influenced by the size of the imbalance.

Aging↗

PubMed1999

Synchronization and desynchronization of neural oscillators.

We have used continuous and discrete-time versions of a neural oscillator model to analyze how various types of synaptic connections between oscillators affect synchronization and desynchronization phenomena. First, we present a synthesis of the mathematical properties of both neural oscillator versions. Then, we show that the choice of parameters leads to a relationship between the two versions. Finally, we achieve the coupling of two oscillators in order to study how synaptic connections affect the phase lag. With this in mind, we state some of the results for the continuous-time model. The second part of this paper deals with the behavior of neural networks comprising connected oscillators, which involves looking at the conditions for desynchronization of a totally synchronized oscillator net. Such a study has been carried out both for a fully and for a sparsely connected network. This leads to the observation that some architectures enable proper desynchronization when the size of the network is large. While searching for the conditions for desynchronization, we have discovered that a macroscopic description of the network is sometimes possible. To conclude, we discuss the advantages and the limitations of this macroscopic approach.

Journal Article↗

PubMed1996

Cartographic study: breakpoints in 1574 families carrying human reciprocal translocations.

Reciprocal translocations (rcp) are among the most common constitutional chromosomal aberrations in man. Using a European database of 1574 families carrying autosomal rcp, a cartographic study was done on the breakpoints involved. The breakpoints are non-randomly distributed along the different chromosomes, indicating "hot spots". Breakpoints of rcp that result in descendants that are unbalanced chromosomally at birth are more frequent in a distal position on chromosomal arms, and 65% of them are localised in R-bands. Among the R-bands, bands rich in GC islands and poor in Alu repetitive sequences are more frequently the site of breakpoints, as well as bands that include a fragile site. This result suggests that the variation in degree of methylation in GC islands could be involved in chromosomal breakage and hence in chromosomal rearrangements. The heterogeneity of the human chromosomal structure has been demonstrable by metaphase banding techniques since 1970. In contrast to G-bands, R-bands are sites of high gene concentration (Korenberg et al. 1978), are relatively rich in cytosine plus guanine (GC), and in Alu repetitive DNA sequences (Korenberg and Rykowski 1988). More recently Holmquist (1992) has proposed four types of R-bands, depending on their relative richness in GC and Alu DNA sequences. R-bands rich in GC correspond almost exactly to T-bands (Dutrillaux 1977). They contain 65% of all genes while they represent only 15% of the genome (Holmquist 1992). The aim of this study is to analyse the distribution of the breakpoints along chromosomes from a European database of autosomal rcp in order to relate it to the specificity of different chromosomal regions.

Base Composition↗

PubMed1996

The genetic code and cyclic codes.

We proposed previously a cyclic code made of 22 triplets, which we now call the AB code. It is made up of the following chain: AUGGUGCCAUUCAAGACUAUGA. The letters A, U, C, G represent the classical symbols of the (purine and pyrimidine) bases of the genetic code. This chain presents the following features: (1) when it is in cyclic form, it begins with the initiation codon AUG, ends with the termination codon UGA, and it can be read triplet after triplet by choosing 1 and only 1 representative of each synonymy class in the classical degenerate genetic code made of 64 triplets. The chain, therefore, possesses 1 and only 1 codon for each amino-acid; (2) except for the doublet CG, triplets of the chain begin with the 15 other possible doublets of bases (satisfying the "wobble" hypothesis presented by Crick); (3) it corresponds (except for 1 base) to the "loop" part of the CEnothera mitochondrial Gly-tRNA; (4) it can be modified, without loss of the properties (1) and (2), in such a way as to have 15 bases in common with the loop part of other mitochondrial tRNA's considered as primitive, like Ala-, Pro- and Arg-tRNA; (5) it contains the most frequent triplets, but not the most rare ones, appearing in the genome of numerous species; (6) it exhibits a coherent internal structure with respect to the molecular weight of its triplets. This structure, also found in the loop part of mitochondrial tRNA's, contains an excess of AU bases with respect to GC bases. This fact has no explanation in the classical probabilistic model of the tRNA's. Therefore, we propose the cyclic AB code as a primitive genetic structure with the essential coding properties of the present genetic code.

Codon↗

PubMed1995

Dynamic functional and structural analysis of living cells: new tools for vital staining of nuclear DNA and for characterisation of cell motion.

Increasing interest has been paid to applications of fluorescence measurements to analyze physiological mechanisms in living cells. However, few studies have taken advantage of DNA quantification by fluorometry for dynamic assessment of chromatin organization as well as cell motion during the cell cycle. This approach involves both optimal conditions for DNA staining and cell tracking methods. In this context, this report describes a stoichiometric method for nuclear DNA specific staining, using the bisbenzimidazole dye Hoechst 33342 associated with verapamil, a calcium membrane channel blocker. This method makes it possible to correlate variations of nuclear DNA content with cell motion in cells that are maintained alive. Motion measurement is the second goal of this paper and it explains the snake-spline method, and the associated cell following method.

Animals↗

PubMed1995

Interpretation of multimodal medical images using connectionist and variational methods.

Our medical objective is to match multimodal 3D medical images into a coherent model of the patient, from which diagnosis can be assessed and therapeutics guided. 3D image segmentation is absolutely necessary to reach this objective. We investigate two complementary approaches for segmenting 3D medical images. First we present some definitions, basic properties and recent theoretical results about formal neural networks, and show that these results can be applied to brain tumour segmentation. A variational approach (called the 'snake spline' method) is then detailed. We finally show how segmented 3D images can be used for multimodal image matching.

Algorithms↗

PubMed1994

Viability thresholds for partial trisomies and monosomies. A study of 1,159 viable unbalanced reciprocal translocations.

From a data base of 1,590 independent families with autosomal reciprocal translocations, 1,159 viable unbalances were studied and the lengths of their trisomy/monosomy segments measured according to the method proposed by Daniel. About 5% of cases were found not to comply with Daniel viability criteria. The thresholds of viability vary with the mode of unbalance and with the sex of the carrier. Thus, new viability criteria are proposed as a guide for genetic counseling and prenatal diagnosis.

Chromosome Aberrations↗

PubMed1993

Entrainment of the respiratory rhythm: a new approach.

When we periodically perturbed the central respiratory oscillator with a controlled periodic stimulation provided by a mechanical ventilator, an entrainment phenomenon occurred: the actual rhythm of the respiratory centres was phase locked to the periodic stimulation. In some experiments, we observed an intermittence phenomenon: the respiratory rhythm successively seemed entrained, departed from this mode for few cycles, returned to the previous pseudo entrainment and so on. From intermittence data, we were able to plot a phase response curve. From literature data on the effects of a single stimulation applied at various moments in the respiratory cycle, we built up a mathematical model designed to simulate entrainment experiments. This model simulated entrainment phenomenon, but did not satisfactorily accommodate the experimental phase response curve. The section of the simulated phase response curve responsible for discrepancies was the result of the combination of an inspiratory shortening owing to a stimulation occurring during inspiration, and a positive relationship between inspiratory duration TI and expiratory duration TE. We changed the TE-TI relationship, assuming that the expiratory duration is determined not by the inspiratory duration but rather by the lung volume at the end of inspiration. The revised model was then able to exhibit almost all the qualitative properties previously noted in experiments. The significance in biological terms of the new TE-TI relationship, which is apparently incompatible with almost all previous experimental data, is discussed.

Animals↗

PubMed1993

Comparative study of human expertise and an expert system: application to the diagnosis of child's meningitis.

We present a general method of statistical evaluation for expert systems, applied to a system for the diagnosis of child's meningitis. Fifty difficult clinical cases of child's meningitis were submitted to the system, to seven senior specialists and to seven young physicians. Multidimensional analysis of the diagnosis of the infection category reveals that the two groups of physicians separate naturally and that the system is located among the group of experts. The study of the agreement of the microbiological diagnosis and therapeutic advice shows that the advice of the two groups of physicians is significantly different and that the advice of the system is significantly closer to that of the experts. This result is confirmed by the study of therapeutic errors. This type of study allows one to classify the performance of the system among physicians having different levels of expertise without referring to an objective solution.

Child↗

PubMed1993

Human reciprocal translocations: is the unbalanced mode at birth predictable?

Two methods of prediction for the risk of unbalance at birth were tested on a large data base of reciprocal translocation (1376 families): the pachytene diagram predictive method (PDP method) and the discriminant method (D method). These method succeeded in correctly predicting the segregation mode in 66% of the data for the PDP method and in 80% of the data for the D method. The quality of chromosome material (in particular R bands) must be taken into account for more accurate prediction. Some difficulties still exist in predicting the 3:1 tertiary segregation mode, which can frequently be incorrectly classified as the adjacent 1 mode.

Humans↗

PubMed1993

Logistic regression model to estimate the risk of unbalanced offspring in reciprocal translocations.

The aim of this study was to estimate the risk of viable unbalanced offspring for a parental carrier of reciprocal translocation. On a large computerized database of reciprocal translocations we used logistic regression to model this risk. The status of the progeny is the outcome variable. Explanatory covariates are cytogenetic characteristics of the translocation, age and sex of the parental carrier, and potential viability of the gametes. The results obtained by the logistic model demonstrate the important role of certain variables such as the sex of the parental carrier and the R band length of the translocated segments. Within the group of lower risk (risk of viable unbalanced offspring less than 5%), 97% of the individuals are correctly classified with this model. For this group, the choice prenatal diagnosis can be best discussed by considering both the risk for viable unbalanced offspring and the risk of induced abortion following prenatal diagnosis.

Adolescent↗

PubMed1992

Potential use of robots in endoscopic neurosurgery.

A 6-axis stereotactic robot has been designed and linked to a stereotactic frame for routine use. Robot software allows the positioning of a probe holder in order to reach a given target. A calibration step enables the robot to compute the position of the x-ray beam and correct its final position to avoid parallax errors. The co-ordinates of the target are presently taken from anteroposterior and lateral X-rays using a digitizing table. Connection with a digitized angiography system is in progress and will allow direct sampling of numerical data from the x-ray data. Further steps will include connections with a 3D-reconstructed image from MRI and CAT as well as with a resident computerized atlas. Present experience after 14 months of daily practice represents 140 stereotactic procedures which can be extended to any special use, including endoscopic approaches.

Brain Diseases↗