NCube/papyrus huggingface dataset:
Les dérivées de l’hémoglobine dans la structure rétinienne par la technique de réflectométrie multi-spectrale

In vivo retinal exams done through non-invasive methods have been an objective for researchers these past years. The eye, just like any other organ in the human body, has a constant need of oxygen in order to maintain homeostasis. The concentration of oxygen present in the retinal blood vessels can be determined mainly by measurements of spectral reflections of the fundus. By sending rays of light at different wavelengths on the retina and analyzing the nature of the reflected light, it is possible to obtain quantitative information on the level of oxygen found in the blood vessels of the retina. However, the establishment of a model is complicated due to the different interactions and pathways taken by the light when passing through the different ocular tissues before leaving the eye. The objective of this thesis has been to develop and validate a mathematical model that calculates the derivatives of haemoglobins by using spectral measurements of reflectometry on the retinal blood vessels. The instrument used to measure the spectral function of reflectometry was a multichannel spectroreflectometer, a technology capable of measuring continuously and simultaneously 800 spectral in vivo. The mathematical equation describing the spectral function of reflectometry in the spectral zone ranging from 480 nm to 650 nm, has been formulated to include the linear combination of multiple terms representing the spectral signatures of haemoglobin SHb, the oxyhaemoglobin SOHB, the absorption and diffusion of ocular media, and a family of multigaussian functions used to compensate the incompatibility of the model and the experimental results in the red zone of the spectral. The results of the model reveal that the spectral signal obtained by the measurements of reflectometry in the eye are complex, such as light absorption, reflection and diffusion, but that each has a specific predominance depending on the spectral zone. The spectral function describing blood absorption is dominant in the 520 to 580 nm spectral zone, whereas diffusion on red blood cells is dominant in the spectral zone containing higher wavelengths starting at 590 nm. The model was used to measure the concentration of oxygen in the microcapillaries found in the optic nerve head following a dynamic physical effort. The physical effort caused a reduction in the concentration of oxygen in the microcapillaries and a reduction of the intraocular eye pressure, whereas the blood saturation of oxygen measured in the finger remained constant.  The mathematical model developed in this project, combined with the innovative technique of multichannel spectroreflectometry, allowed to determine in a non-invasive in-vivo method, the oxygenation of the retinal blood vessels.

Keyphrases: Spectrophotometry, Model, Oxygen concentration, Retinal blood vessels, Haemoglobin, Oxyhaemoglobin
Caractérisation moléculaire d’un récent modèle d’étude de la leucémie myéloïde aigüe à caryotype normal :la lignée cellulaire CG-SH

Acute myeloid leukemia (AML) is the most frequent form of leukemia in the adult population in Canada. Although many recurrent chromosomal rearrangements have been identified in AML, almost half of all adult patients will present with a normal karyotype (NK-AML). The in vitro study of NK-AML is difficult because the long-term survival of primary patient samples is deficient and AML cell lines have a highly abnormal karyotype. In 2009, Munker and collegues established a new cell line, CG-SH, with the advantage of having a normal karyotype. The main goal of this research project is to further characterize this new model system. We identified all the genetic variants present in the CG-SH cells using whole genome sequencing. We also isolated the variants that are susceptible to participate to leukemogenesis, including the insertions detected in EZH2 and GATA2, and several missense mutations occurring in relevant genes for AML. We found that a combination of cytokines promotes the proliferation of CG-SH cells, and that cytokines act on the cells behavior through expression changes of the genes involved in the regulation of proliferation, apoptosis and differentiation. Moreover, cytokines trigger a decrease of the necrotic rate of CG-SH on the short-term. The current study allowed us to better appreciate molecular characteristics of the CG-SH cell line, a new model to study NK-AML in vitro.

Keyphrases: Cytokines, Acute myeloid leukemia, Leukemic cell line, Next generation sequencing
Influence du microenvironnement inflammatoire sur la sénescence contrôlée par la réponse aux dommages à l'ADN, et sa régulation par l’induction du stress à la chromatine

Cellular senescence, or irreversible proliferation arrest, is known for its influence on physiological and pathological processes, such as cancer. Among the features found in the senescent phenotype is the inflammatory secretome, also known as the senescence associated secretory phenotype (SASP). The SASP consists of a variety of factors such as cytokines, growth factors and proteases. It is widely recognized that SASP can have either a pro- or anti-tumor effect, but it is not clear which one predominates. My work focused on the SASP effects on the induction of senescence in surrounding cells and its regulation mechanisms. We demonstrated that the SASP does not synergize with chronic or induced telomere dysfunction to cause cellular proliferation arrest. Also, study of chromatin stress-induced senescence mechanism suggests that kinase c-Abl is not required for this pathway, contrary to what had been previously published. My work helps understand the regulatory and working mechanisms of the SASP in chromatin stress-induced and telomere dysfunction-induced senescence models.

Keyphrases: c-Abl, Senescence, SASP, Inflammatory microenvironment, Telomere dysfunction, Histone deacetylase, Chromatin stress
Une nouvelle approche computationnelle pour la découverte des sites de fixation de facteurs de transcription à l’ADN, adaptée aux données de ChIP-chip et de ChIP-séquençage

Transcription factors (TF) play important roles in various biological processes such as differentiation, cell cycle progression and tumorigenesis. They regulate gene expression by binding to specific DNA sequences (TFBS). Identifying these cis-regulatory elements is a crucial step to understand gene regulatory networks. Technological developments have enhanced DNA sequencing at genomic scale. On the basis of the resulting sequences, computational biologists now attempt to localize the most important functional regions, starting with genes, but also importantly the whole genome characterization of transcription factor binding sites and allow the development of several computational DNA motif discovery tools.   Although these various tools are widely used and have been successful at discovering novel motifs, they are not adapted to ChIP-chip and ChIP-sequencing data. The main drawback of these approaches is that most of the predicted motifs represent artifacts due to an inefficient assessment of their enrichment.    This thesis is about transcription factor proteins and statistical analysis of their binding sites in ChIP-chip and ChIP-sequencing data. The first objective was to develop a new do novo DNA motif discovery tool adapted to ChIP-chip and ChIP-sequencing data. SAMD-ChIP combines enumerative and stochastic strategies to predict enriched motifs in the vicinity of the ChIP peak summits. Our approach is an automated pipeline that includes motif discovery, motif clustering, motif optimization and finally motif identification using transcription factor (TF) databases. SAMD-ChIP outperforms state-of-the-art motif discovery tools in term of the number of predicted motifs and the prediction of rare and degenerate motifs. In particular, SAMD-ChIP efficiently identifies gapped motifs such as inverted or direct repeats bound by nuclear receptors and composite motifs resulting from the association of different single TF binding sites.   The underlying assumption of the second objective is that in regulatory regions, binding sites of interacting transcription factors co-occur more often than expected by chance in the vicinity of the ChIP-peak summits. We proposed an approach to predict transcription factor binding sites co-localization based on the prediction of single motifs by do novo motif discovery tools or by using TFBS models from TF data bases.

Keyphrases: ChIP-chip, gene regulatory network, scoring functions, TFBS, TF
Cartographie génétique d’une forme familiale autosomale dominante d’anévrysmes du septum inter-ventriculaire et de communications inter-ventriculaires au chromosome 10p15

Cardiac malformations represents 28 % of all major congenital malformation and affect 8 per 1000 live birth. They are the most frequent cause of non infectious mortality and morbidity in childen of less then 1 year of life.  Although ventricular septal defects (VSD) are the most common congenital heart lesion, familial clustering has been described only in rare instances. The aim of this study was to identify genetic factors and chromosomal regions contributing to VSD. A unique, large kindred segregating various forms of septal pathologies—including VSD, ventricular septal aneurysms, and atrial septal defects (ASD)—was ascertained and characterized clinically and genetically. Eighteen family members in three generations could be studied, out of whom 10 are affected (2 ASD, 3 septal aneurysm, 4 VSD, and 1 tetralogy of Fallot).  Parametric multipoint LOD scores reach significance on chromosome 10p15.3-10p15.2 (max. 3.29). The LOD score support interval is in a gene-poor region where deletions have been reported to associate with septal defects, but that is distinct from the DiGeorge syndrome 2 region on 10p. Multiple linkage analysis scenarios suggest that tetralogy of Fallot is a phenocopy and genetically distinct from the autosomal dominant form of septal pathologies observed in this family. This study maps a rare familial form of VSD/septal aneurysms to chromosome 10p15 and extends the spectrum of the genetic heterogeneity of septal pathologies. Fine mapping, haplotype construction, and resequencing will provide a unique opportunity to study the pathogenesis of septal defects and shed light on molecular mechanisms of septal development.

Keyphrases: Chromosome 10p15, Congenital heart disease, Ventricular septal defects, Tetralogy of Fallot, Linkage analysis, Molecular genetics
Le droit à l'information au cœur des impératifs commerciaux du développement durable : le précédent de l'agriculture biologique

Organic farming is the result of a long struggle of the consumer and the citizen to know and control the quality of its food. Its rising popularity confirms that the availability of information on the supply plays a central role to economic and social demand. This trend supports the emergence of a new element within the corpus of human rights: the right to information. This study examines the stages of its formation and takes for example the organic food chain. It represents a pioneering model of hybridation between private law and public law.    We first examine how the activity of civil and private sectors food helped foment the desire of consumer information, and then put it in jeopardy. Along with this, we propose to analyze the impact and influence of the corpus of rights and principles of sustainable development of the organic sector, but especially on the recognition of the need for consumer information. Finally, we present an overview of government regulation of the organic designation, its logo and its label. In order to do this, we evaluate the measures in place according to the criterias of accuracy, accessibility and completeness of the information disclosed to the consumer.    In light of our analysis, the consumer can draw their own conclusions on the best normative responses to their needs. What measures between transnational law, international law and national law provide the best outcome? Which of these legal forms is able to promote a form of responsible consumption where consumers no longer face barriers to its choice?

Keyphrases: Right to information, Organic agriculture, Consumer law, Standards, Labels, Labels, Logos, Logos, Sustainable development law
Quand les gendarmes font la loi : la pénalisation du droit des réfugiés au Canada

The research analyzes the treatment of asylum seekers in Canada. In particular, it focuses on the interpretation and application of Section 7 of the Canadian Charter of Rights and Freedoms. The analysis underscores how the implementation of refugee claimants’ human rights is affected, according to the times, by humanitarian considerations [Singh, 1985], or, as is the case since September 11, 2001, by the imperatives of alleged national security. [Suresh, 2002]. From an analytical point of view, the research considers that when it comes to protecting vulnerable populations - which Canada is legally bound to do- public law is not limited to the constituents of its own community, (members, citizens and residents), but also to strangers and more specifically, to refugees. Moreover, the Charter recognizes that “everyone” is entitled to the protection of his or her fundamental rights, including migrants and refugees. This protection prevents the state from acting against the life, liberty and security of the person. Exceptions to these rights recognized under Section 7 must be narrowed to the very essence of what a democratic society could allow. In this context, the research questions the arguments and justifications of some judicial and legislative decisions that have discredited the implications of carrying notions of mandatory values, such as equity, human dignity, freedom and the security of the individual, instead favoring state interests based on the classical conception of sovereignty.

Keyphrases: Canadian Charter, Human Rights, Refugees and asylum seekers, National security, Exclusion and removal to torture, Theory of legitimate basis, Constitutional law, International mandatory law
The Influence of ICC Arbitral Decisions on Canadian Law: Comparative Study between Civil Law and Common Law Jurisdictions

This paper’s objective is to demonstrate that the International Chamber of Commerce’s arbitral awards may be considered as a potential source of law in Canada. There currently exists an uncertainty as to the substantive law used in international commercial arbitration. While the use of lex mercatoria to solve commercial disputes is often referred to, several terminological and conceptual uncertainties undermine its credibility. The use of a methodological approach to lex mercatoria allows for a twofold classification of its sources through: (1) international legislation and (2) stare decisis from international arbitral tribunals. This methodological approach provides a greater certainty for the application of a uniform law which, in turn, allows for the study of interlegality between rules of lex mercatoria and substantive domestic law. Furthermore, this methodological approach facilitates the demonstration of the similarities and differences between international arbitral decisions, international legislation as well as Canadian common law and civil law jurisdictions. This comparative analysis will allow the study of the potential influence of the arbitral decisions of the International Chamber of Commerce on substantive Canadian law and whether this influence is more important in civil law or common law.

Keyphrases: CCI, Common law, Lex mercatoria, Droit commercial transnational, Arbitral decisions, ICC, Common law, Civil law, Lex mercatoria, Transnational commercial law, Methodological approach, Interlegality
Le rôle de l’avocat dans les transactions d’acquisition et fusion d’entreprises

Technological advancements and globalisation have allowed people to access information more rapidly and easily than ever, thus provoking significant changes in the legal profession to adapt to the new sophisticated and demanding clientele. In this research, we focus on certain aspects needed to be considered by modern lawyers in assisting their clients in the context of merger and acquisition transactions.

Keyphrases: F&A, Business law, M&A, Fusions, Acquisitions, Mergers, Acquisitions, Lawyer, Legal counsel, Due diligence, Sale of business
Opportunités du REDD+ pour l'aménagement durable des forêts tropicales et obstacles à son implantation en République démocratique du Congo : perspective juridique

The situation of the rainforest in developing countries in general and the Democratic Republic of Congo (DRC) in particular is worrying. Emissions of carbon dioxide from deforestation are about 1.6 GtCO2e/an, or 17% of global emissions of "greenhouse gases". Under the auspices of the UN Framework Convention on Climate Change, REDD+ has been established to fight against the deforestation and degradation of forests. This study examines the different opportunities offered by the program for ecosystem-based management of forest cover in the DRC and contextual barriers to its implementation. For the DRC, REDD+ has a number of opportunities: reducing emissions from deforestation and forest degradation; work begins afforestation and reforestation for sustainable management of resources leading to job creation and promoting the growth of GDP and exports, increased yield and maintaining greater food needs. The REDD+ can promote the growth of the agricultural gross domestic product. It can contribute to the electrification of households and halve spending dependent on mining and oil and thus generate thousands of jobs in infrastructure. For local and indigenous communities, it can also help to protect and promote the cultures associated with the forest. But, faced with the burdens of legal, political, social, economic, technological and cultural characteristics of the country, these opportunities may be diminished, if not annihilated. Given that most of the deployment of the REDD+ will happen in Congolese rural areas, the major obstacle is the customary law. The solution would be to harmonize the requirements and objectives of REDD+ not only with the Forest Code of 2002 and its implementing rules but also with the customary law which local and indigenous communities identify.

Keyphrases: REDD+, forest, rainforest, sustainable development, deforestation, degradation, sustainable forest management, ecosystem approach, integrated management, community forestry
Les dispositions spéciales de la lex situs en droit international privé des successions

The « special inheritance rules » of the lex situs introduce a particular exception to the unitary system of the law applicable to succession. Its recognition by the recent Regulation (EU) No 650/2012 of the European Parliament and of the Council of 4 July 2012 on jurisdiction, applicable law, recognition and enforcement of decisions and acceptance and enforcement of authentic instruments in matters of succession and on the creation of a European Certificate of Succession demonstrates the importance and the current relevance of this legal provision. We find the immediate precedent of the rule in Article 15 of the Convention of 1 August 1989 on the Law Applicable to Succession to the Estates of Deceased Persons, which also inspired Article 3099 par. 2 of the Civil Code of Quebec. The original conception of the rule comes from Article 28 of the Introductory Act of the German Civil Code of 1896. These legislations acknowledged the necessity of giving effect to some special provisions on succession whose material content legitimates an exceptional breach of the unity in international successions. Therefore, the traditional conflict between the scission and the unitary system of the law applicable to succession finds a conciliatory factor in the observation of the “special provisions” of the lex rei sitae over some particular assets of the estate notwithstanding the conflict rule. The intention is to preserve a minimal content of the State’s law where certain assets are located against the threat that a foreign lex successionis brings about. This uncompromising set of rules presents itself as a bridge to close the gap between these two extreme solutions. It does not contemplate the classic meaning of scission based on the movable or immovable nature of the property (territorial scission), but it breaks nonetheless the principle of unity, in favor of certain substantial considerations derived from the economic, family or social function of some specific assets, by means of a special connection to the lex situs.

Keyphrases: successions, lex situs, inheritance, particular inheritance regimes, European Succession Regulation, Civil Code of Quebec, International Private Law
Principe de finalité, protection des renseignements personnels et secteur public : étude sur la gouvernance des structures en réseau

Personal data protection poses significant challenges in the context of networks. The first laws on this matter both in Canada and in Europe were based on a series of principles that remain valid today. Nevertheless, Internet and the development of network-based structures that enable infinite exchange of information between institutions and individuals are changing the priorities and, at the same time, present new risks related to data protection. The purpose principle, which is the personal data protection systems cornerstone, stresses the relevance and adequate yet not excessive nature of the collected information vis à vis the objective of data collection. The purpose principle also requires that the information shall not further be processed in a way incompatible with the initial purpose. We will describe the origins and evolution of this principle, as well as its present relevance and scope analysing the doctrine, jurisprudence and decisions of the Office of the Privacy Commissioner in Canada and of the Commission nationale de l’informatique et des libertés (CNIL) in France. We will also examine how this principle is reflected in the network structure of the digital administration and of the electronic government. We will also underline the differences between a network-based State and a « silo-based » State, each needing its structure of governance. Within the context of personal data protection, we will explore the presence of legal standards and of concepts with a changing nature. An effort will be made to highlight how purpose, be it as a principle or as a standard, has the capacity to adapt to the requirements of the core principles of the current network governance, such as proportionality, adjustment and continuous mutation. Finally, the objective is to reflect on some personal data protection network adaptation mechanisms, and to demonstrate how personal data protection can work in a network that includes all « post-modern law » elements that allow for true adaptation for effective personal data protection within the ever changing structures where data is being exchanged.

Keyphrases: Internet, Personal data protection, Electronic government, Privacy, Internet, Legal standard, Purpose principle, Network, Governance