Evidence-based software engineering (EBSE) solutions for drug discovery that are effective, affordable, and accessible all-in-one are lacking. This thesis chronicles the progression and accomplishments of the AiDA (Artificially-intelligent Desktop Assistant) functional artificial intelligence (AI) project for the purposes of drug discovery in the challenging acute myeloid leukemia context (AML). AiDA is a highly automated combined natural language processing (NLP) and spreadsheet feature extraction solution that harbours potential to disrupt the state of current research investigation methods using big data and aggregated literature. The completed work includes a text-to-function (T2F) NLP method for automated text interpretation, a ranked-list algorithm for multi-dataset analysis, and a custom multi-purpose neural network engine presented to the user using an open-source graphics engine. Validation of the deep learning engine using MNIST and CIFAR machine learning benchmark datasets showed performance comparable to state-of-the-art libraries using similar architectures. An n-dimensional word embedding method for the handling of unstructured natural language data was devised to feed convolutional neural network (CNN) models that over 25 random permutations correctly predicted functional responses to up to 86.64% of over 300 validation transcripts. The same CNN NLP infrastructure was then used to automate biomedical context recognition in >20000 literature abstracts with up to 95.7% test accuracy over several permutations. The AiDA platform was used to compile a bidirectional ranked list of potential gene targets for pharmaceuticals by extracting features from leukemia microarray data, followed by mining of the PubMed biomedical citation database to extract recyclable pharmaceutical candidates. Downstream analysis of the candidate therapeutic targets revealed enrichments in AML- and leukemic stem cell (LSC)-related pathways. The applicability of the AiDA algorithms in whole and part to the larger biomedical research field is explored. / Thesis / Master of Science (MSc) / Lead generation is an integral requirement of any research organization in all fields and is typically a time-consuming and therefore expensive task. This is due to the requirement of human intuition to be applied iteratively over a large body of evidence. In this thesis, a new technology called the Artificially-intelligent Desktop Assistant (AiDA) is explored in order to provide a large number of leads from accumulated biomedical information. AiDA was created using a combination of classical statistics, deep learning methods, and modern graphical interface engineering. It aims to simplify the interface between the researcher and an assortment of bioinformatics tasks by organically interpreting written text messages and responding with the appropriate task. AiDA was able to identify several potential targets for new pharmaceuticals in acute myeloid leukemia (AML), a cancer of the blood, by reading whole-genome data. It then discovered appropriate therapeutics by automatically scanning through the accumulated body of biomedical research papers. Analysis of the discovered drug targets shows that together, they are involved in key biological processes that are known by the scientific community to be involved in leukemia and other cancers.

Background The role of allogeneic hematopoietic cell transplantation (alloHCT) in acute myeloid leukemia (AML) with mutated IDH1/2 has not been defined. Therefore, we analyzed a large cohort of 3234 AML patients in first complete remission (CR1) undergoing alloHCT or conventional chemo-consolidation and investigated outcome in respect to IDH1/2 mutational subgroups (IDH1 R132C, R132H and IDH2 R140Q, R172K). Methods Genomic DNA was extracted from bone marrow or peripheral blood samples at diagnosis and analyzed for IDH mutations with denaturing high-performance liquid chromatography, Sanger sequencing and targeted myeloid panel next-generation sequencing, respectively. Statistical as-treated analyses were performed using R and standard statistical methods (Kruskal–Wallis test for continuous variables, Chi-square test for categorical variables, Cox regression for univariate and multivariable models), incorporating alloHCT as a time-dependent covariate. Results Among 3234 patients achieving CR1, 7.8% harbored IDH1 mutations (36% R132C and 47% R132H) and 10.9% carried IDH2 mutations (77% R140Q and 19% R172K). 852 patients underwent alloHCT in CR1. Within the alloHCT group, 6.2% had an IDH1 mutation (43.4% R132C and 41.4% R132H) and 10% were characterized by an IDH2 mutation (71.8% R140Q and 24.7% R172K). Variants IDH1 R132C and IDH2 R172K showed a significant benefit from alloHCT for OS (p = .017 and p = .049) and RFS (HR = 0.42, p = .048 and p = .009) compared with chemotherapy only. AlloHCT in IDH2 R140Q mutated AML resulted in longer RFS (HR = 0.4, p = .002). Conclusion In this large as-treated analysis, we showed that alloHCT is able to overcome the negative prognostic impact of certain IDH mutational subclasses in first-line consolidation treatment and could pending prognostic validation, provide prognostic value for AML risk stratification and therapeutic decision making.

No description available.

L’importance des modificateurs de la chromatine dans la régulation de l’hématopoïèse et des hémopathies malignes est illustrée par l’histone méthyltransférase Mixed-Lineage Leukemia (MLL) qui est essentielle au maintien des cellules souches hématopoïétiques (CSH) et dont le gène correspondant, MLL, est réarrangé dans plus de 70% des leucémies du nourrisson. Les histones déméthylases (HDM), récemment découvertes, sont aussi impliquées dans le destin des CSH et des hémopathies malignes. Le but de ce projet est d’étudier l’expression des HDM dans les cellules hématopoïétiques normales et leucémiques afin d’identifier de potentiels régulateurs de leur destin. Nous avons réalisé un profil d'expression génique des HDM par qRT-PCR et par séquençage du transcriptome (RNA-seq) dans des cellules de sang de cordon (cellules CD34+ enrichies en CSH et cellules différenciées) et des cellules de leucémie aiguë myéloïde (LAM) avec réarrangement MLL. Les deux techniques montrent une expression différentielle des HDM entre les populations cellulaires. KDM5B et KDM1A sont surexprimés dans les cellules CD34+ par rapport aux cellules différenciées. De plus, KDM4A et PADI2 sont surexprimés dans les cellules leucémiques par rapport aux cellules normales. Des études fonctionnelles permettront de déterminer si la modulation de ces candidats peut être utilisée dans des stratégies d’expansion des CSH, ou comme cible thérapeutique anti-leucémique. Nous avons aussi développé et validé un nouveau test diagnostique pour détecter les mutations de GATA2 qui code pour un facteur de transcription clé de l’hématopoïèse impliqué dans les LAM. Ces travaux soulignent l’importance des facteurs nucléaires dans la régulation de l’hématopoïèse normale et leucémique. / The importance of chromatin modifiers in regulation of hematopoiesis and hematologic malignancies is illustrated by the Mixed-Lineage Leukemia (MLL) histone methyltransferase, which is essential to maintain hematopoietic stem cells (HSC) and whose corresponding gene, MLL, is rearranged in over 70% of infant leukemia. The recently discovered histone demethylases (HDM) are also involved in HSC fate and in hematologic malignancies. The purpose of this project is to study the expression of HDM in normal and leukemic hematopoietic cells to identify potential regulators of their fate. We performed a comprehensive gene expression profile of HDM by qRTPCR and transcriptome sequencing (RNA-seq) in cord blood cells (CD34+ cells enriched in HSC and differentiated cells) and in acute myeloid leukemia (AML) cells with MLL rearrangement. Both techniques revealed differential expression of HDM between these cell populations. KDM5B and KDM1A are overexpressed in CD34+ cells compared to differentiated cells. Moreover, KDM4A and PADI2 are overexpressed in leukemic cells compared to normal cells. Functional studies will determine whether modulation of these candidates can be used in HSC expansion strategies or as anti-leukemic drug target. We have also developed and validated a new diagnostic test to detect mutations of GATA2, a gene encoding a key transcription factor involved in hematopoiesis and in AML. This work highlights the importance of nuclear factors in the regulation of normal and leukemic hematopoiesis.

Les leucémies myéloïdes aigües résultent d’un dérèglement du processus de l’hématopoïèse et regroupent des maladies hétérogènes qui présentent des profils cliniques et génétiques variés. La compréhension des processus cellulaires responsables de l’initiation et du maintien de ces cancers permettrait de développer des outils thérapeutiques efficaces et ciblés. Au cours des dernières années, une quantité croissante d’anomalies génétiques reliées au développement de leucémies ont été corrélées à une expression anormale des gènes HOX et de leurs cofacteurs MEIS et PBX. Des modèles expérimentaux murins ont confirmé le rôle direct joué par ces protéines dans le développement de leucémies. En effet, la protéine MEIS1 collabore avec HOXA9 dans la leucémogenèse et requiert pour ce faire trois domaines distincts. Deux de ces domaines sont conservés chez PREP1, un membre de la même classe d’homéoprotéine que MEIS1. En utilisant une approche de gain-de-fonction, j’ai confirmé l’importance du rôle joué par le domaine C-terminal de MEIS1 dans l’accélération des leucémies induites par HOXA9. J’ai également montré que l’activité de ce domaine était corrélée avec une signature transcriptionnelle associée à la prolifération cellulaire. J’ai ensuite réalisé un criblage à haut débit afin d’identifier des antagonistes de l’interaction MEIS-PBX, également essentielle à l’accélération des leucémies HOX. À cette fin, j’ai développé un essai de transfert d’énergie de résonance de bioluminescence (BRET) permettant de détecter la dimérisation MEIS-PBX dans les cellules vivantes. Plus de 115 000 composés chimiques ont été testés et suite à une confirmation par un essai orthogonal, une vingtaine de molécules ont été identifiées comme inhibiteurs potentiels. Ces composés pourront être rapidement testés sur la prolifération de cellules leucémiques primaires dans un contexte d’étude préclinique. Finalement, deux approches protéomiques complémentaires ont permis d’identifier des partenaires potentiels de MEIS1 et PREP1. La catégorisation fonctionnelle de ces candidats suggère un nouveau rôle pour ces homéoprotéines dans l’épissage de l’ARN et dans la reconnaissance de l’ADN méthylé. / Acute myeloid leukemias are the result of a perturbed hematopoietic process and regroup heterogeneous diseases with distinct clinical and genetic profiles. Identifying and understanding the faulty cellular processes would allow the development of targeted and efficient therapeutic tools. Over the last 15 years, a growing number of disease-linked genetic anomalies have been correlated with abnormal expression levels of HOX genes and their cofactors MEIS and PBX. Mouse model experimentations revealed a direct role for these proteins in leukemogenesis. Indeed, the protein MEIS1 collaborates with HOXA9 in the acceleration of leukemia development. This specific function requires the presence of three different domains, two of which are highly conserved in PREP1, another member of the MEIS class of homeoproteins. Using a gain-of-function approach, I confirmed the importance of the C-terminal domain of MEIS1 in the acceleration of HOXA9-induced leukemias. I also correlated the activity of this domain with a transcriptional signature related to cell proliferation. Furthermore, I performed a high-throughput screen to identify antagonists of the MEIS-PBX interaction, also required for acceleration of HOX-induced leukemogenesis. In this regard I developed an assay that exploits bioluminescence resonance energy transfer (BRET) to monitor the MEIS-PBX dimerization in living cells. More than 115 000 compounds were tested and upon confirmation of their activity using an orthogonal assay, 20 small molecules were identified as potential inhibitors. These compounds will be rapidly tested on proliferation of primary leukemic cells in a preclinical setting. Finally two complementary proteomic approaches allowed the identification of new potential partners of MEIS1 and PREP1. The functional clustering of these candidates suggests a new role for homeoproteins in mRNA splicing and methylated DNA recognition.

Le protéasome (CP) contrôle la majorité des fonctions cellulaires par la dégradation des protéines intracellulaires. En plus d’exprimer le CP, les vertébrés expriment également l’immunoprotéasome (IP), caractérisé par des préférences de dégradation distinctes. Le rôle le mieux caractérisé pour l’IP est la génération d’antigènes adaptés pour la liaison au complexe majeur d’histocomptabilité de classe I (CMH-I). Cependant, les nombreux phénotypes observés au niveau de cellules déficientes en IP ou avec une mutation révèlent que l’IP influence des fonctions immunitaires indépendamment de la génération d’antigènes et peut atténuer le stress présent au niveau de cellules non-immunitaires. L’objectif de cette thèse était de caractériser les rôles de l’IP qui ne sont pas reliés à la génération d’antigènes associés au CMH-I. L’analyse du transcriptome de cellules dendritiques IP-déficientes en cours de maturation révèle que l’IP affecte l’expression de plus de 8 000 transcrits. L’IP affecte l’expression génique principalement au niveau transcriptionnel en contrôlant l’abondance de régulateurs de transcriptions tels que NF-κB et les membres des familles IRF et STAT. Les cellules dendritiques IP-déficientes sont également moins efficaces pour activer des lymphocytes T CD8+, même chargées artificiellement avec des quantités optimales d’antigènes associés au CMH-I. En outre, nos études montrent que l’IP est fortement exprimé au niveau de cellules de patients atteints de leucémie myéloïde aigue. L’expression de l’IP est intrinsèque aux leucémies, puisque qu’elle n’est pas corrélée à la présence de lymphocytes sécréteurs d’IFN-γ. De plus, l’expression d’IP est particulièrement élevée au niveau de leucémies monocytaires et/ou possédant un réarrangement MLL. Notamment, des analyses de corrélation montrent que l’IP est connecté à des gènes impliqués dans le métabolisme, l’activité mitochondriale et la réponse au stress. En effet l’inhibition de la sous-unité PSMB8 de l’IP mène à l’accumulation de protéines ubiquitinées et la mort de cellules leucémiques monocytaires. Globalement, nos travaux montrent que le rôle de l’IP n’est pas limité à la génération d’antigènes, mais qu’il peut contrôler l’expression génique et la survie des leucémies. / By regulating protein degradation, constitutive proteasomes (CP) control practically all cellular functions. In addition to CP, vertebrates express immunoproteasomes (IP), which display distinct substrate preferences. The first non-redundant role ascribed to IP is its enhanced ability to generate MHC I-associated antigens. However, deletion or inhibition of IP subunits can affect several immune cell functions independently of MHC-I antigen generation. Moreover, recent work has shown that IP can be expressed in non-immune cells to deal with cell stress. Thus, we wished to investigate the roles of IP that are not related to antigen generation and that are not redundant with the CP. Based on profiling of WT and IP-deficient maturing mouse dendritic cells (DCs), we report that IP regulate the expression of more than 8,000 transcripts. The broad impact of IP on gene expression is cell-autonomous, mediated mainly at the transcriptional level, and involves major signaling pathways including IRFs, NF-kB and STATs. Moreover, even when engineered to present optimal amounts of antigenic peptides, IP-deficient DCs are inefficient for in vivo T-cell priming. In addition, consistent with the fact that cancer cells endure proteotoxic stress, we report that acute myeloid leukemia (AML) cells from patients express high levels of IP genes. Expression of IP genes in AML is a cell-autonomous and IFN-independent feature that correlates with the methylation status of IP genes, and is particularly high in AML with a monocytic phenotype and/or MLL rearrangement. Notably, IP inhibition leads to accumulation of polyubiquitinated proteins and cell death in IPhigh but not IPlow AML cells. Co-clustering analysis reveals that genes correlated with IP subunits in monocytic AMLs are primarily implicated in cell metabolism and proliferation, mitochondrial activity and stress responses. Overall, our studies show that the role of IP is not limited to antigen processing and reveals major non-redundant roles for IP in transcription regulation and resistance to cell stress in AML.

Klasické schéma vývoje hematopoetických buněk předpokládá časné oddělení lymfoidního a myeloidního prekurzoru. V poslední době jsou navrhovány složitější modely, které předpokládají větší flexibilitu hematopoezy a navrhují existenci progenitorů s lymfoidním i myeloidním potenciálem. Akutní hybridní leukémie jsou malignity, které podle různých kritérií nelze jednoznačně zařadit k lymfoidní nebo k myeloidní linii a jejichž chování spíše dává za pravdu novým modelům hematopoezy. Předkládaná práce se zabývala především výzkumem dětských leukémií s přesmykem z lymfoidní do myeloidní linie během indukční léčby. Jedná se o rozsáhlý projekt, v jehož rámci si diplomová práce si kladla za úkol určit liniové zařazení leukemických blastů pomocí detekce přestaveb genů pro imunoglobuliny a T-buněčné receptory (TCR). Potvrdili jsme, že myeloidní buňky derivované v průběhu léčby pochází u všech pacientů z původního lymfoidního klonu. Dále jsme u těchto případů zkoumali expresi vytipovaných genů ve srovnání s běžnými druhy leukémií. Třetí částí práce byl výzkum prognostického významu přítomnosti přestaveb TCR (a tedy příslušnosti k lymfoidní linii) u leukémií z T-lymfoidní řady.

Sabe-se que TRAIL é capaz de matar células tumorais de forma seletiva e que TRAIL tem sua expressão reduzida em diversos tumores, porém pouco se sabe sobre os mecanismos responsáveis pela sua inibição. Tendo em vista que a expressão de TRAIL pode ser regulada pelo Ácido Retinóico; que PRAME é capaz de inibir a via do ácido retinóico através da proteína EZH2 e que nós observamos anteriormente que a expressão de TRAIL esta diminuída em pacientes com LMC, nós decidimos investigar a associação entre PRAME, EZH2 e TRAIL na LMC. Nós demonstramos que PRAME, mas não EZH2, tem sua expressão aumentada em células BCR-ABL+ e sua expressão está associada com a progressão da LMC. Alem disto, existe uma correlação positiva entre PRAME e BCR-ABL e negativa entre PRAME e TRAIL nestes pacientes. A inibição da expressão de PRAME ou EZH2 por RNAi induziu um aumento da expressão de TRAIL. Estes dados revelam um novo mecanismo de regulação responsável por diminuir a expressão de TRAIL, e geram novos possíveis alvos para a terapia da LMC e, possivelmente, também para outros tumores. / TRAIL was shown to selectively kill tumor cells. Not surprisingly, TRAIL is down-regulated in a variety of tumor cells, but the mechanism responsible for TRAIL inhibition remains elusive. Because TRAIL can be regulate by retinoic acid; PRAME was shown to inhibit transcription of retinoic acid receptor target genes through the polycomb protein EZH2; and we have found that TRAIL is inversely correlated with BCR-ABL in CML patients, we decided to investigate the association of PRAME, EZH2 and TRAIL in BCR-ABL-positive leukemia. Here, we demonstrate that PRAME, but not EZH2, is up-regulated in BCR-ABL cells and is associated with the progression of disease in CML patients. In addition, PRAME expression is positively correlated with BCR-ABL and negatively with TRAIL in these patients. Importantly, knocking down of PRAME or EZH2 by RNA interference restores TRAIL expression. Our data reveal a novel regulatory mechanism responsible for lowering TRAIL expression and provide the basis of alternative targets for combined therapeutic strategies for CML.

Anemia aplástica adquirida (AAA) é doença rara e seu diagnóstico diferencial inclui a Síndrome mielodisplásica hipocelular (SMD-h). A evolução de AAA para SMD/LMA (Síndrome mielodisplásica/Leucemia mieloide aguda) ocorre em até 15% dos casos. Este estudo propõe-se a comparar parâmetros histológicos e imuno-histoquímicos de pacientes adultos e crianças com AAA que evoluíram e não para SMD/LMA. Seu objetivo é avaliar a ocorrência dos critérios morfológicos/imunofenotípicos nas biópsias de medula óssea do grupo pediátrico (<19 anos) com o grupo de adultos, comparar esses critérios associados à evolução para SMD/LMA nestes dois grupos e verificar se estes critérios superpõem-se àqueles descritos na literatura na SMD-hipocelular do adulto e, mais recentemente, na SMD pediátrica (Citopenia refratária da infância - CRI). Espera-se trazer uma contribuição para a discussão da intersecção entre essas entidades e a AAA, estudando essa \"zona cinzenta\" do ponto de vista dos pacientes com AAA, particularmente aqueles que progrediram para SMD/LMA. Foram analisadas, retrospectivamente, 118 biópsias de medula óssea ao diagnóstico de AAA, idiopática ou não, realizadas no Hospital das Clínicas da Faculdade de Medicina da Universidade de São Paulo entre 1993 e 2012. O diagnóstico de AAA foi estabelecido de acordo com critérios clássicos. A evolução de AAA para SMD ou LMA foi considerada na presença de: disgranulopoese ou dismegacariopoese acentuadas, mais de 15% de sideroblastos em anel, blastos em sangue periférico ou mais de 5% de blastos na medula óssea ao mielograma e/ou à biópsia de medula óssea ou na presença de estudo citogenético (FISH ou cariótipo) da medula óssea, apresentando monossomia ou deleção do braço longo do cromossomo 7. Todas as biópsias foram submetidas à análise morfológica e imuno-histoquímica (MPO, Glicoforina A, Fator VIII, CD34, CD117 e Ki-67) por dois hematopatologistas sem conhecimento prévio da evolução dos pacientes. As variáveis qualitativas nominais foram analisadas pelo teste exato de Fisher para verificar se houve desproporção significativa entre os grupos. As variáveis qualitativas ordinais foram analisadas para a diferença entre os grupos pelo teste de Mann-Whitney. O nível de significância adotado foi 5% (p=0,05). A correlação entre os valores de celularidade geral das amostras e seu índice proliferativo foi avaliada pelo teste não paramétrico Rô de Spearman. Setenta e um pacientes (60,2%) eram do gênero masculino com mediana de idade 24,4 anos (mínimo de 7 meses até 76 anos), 42 do grupo pediátrico e 76 adultos, e tempo de seguimento de 5,1 anos (de 1 mês a 22,1 anos). Doze (10,2%) (seis em cada grupo) pacientes evoluíram para SMD/LMA. Avaliação dos parâmetros morfológicos e imuno-histoquímicos mostrou distribuição irregular do tecido hematopoético em 59 (50%) casos, mediana de celularidade geral de 10% (de 1% a 40%), distúrbio de maturação da série granulocítica (critério 1) em três (2,5%) casos, localização anormal da eritropoiese em 13 (11%) casos, agregados de pelo menos 20 precursores eritroides (critério 2), em 54 (45,7%) casos, presença de formas jovens eritroides (proeritroblastos) (critério 3) em 32 (27,1%) casos, aumento do número de mitoses dos elementos eritroides (critério 4) em 24 (20,3%) casos, displasia de megacariócitos (micromegacariócitos, megacariócitos bi ou multinucleados e elementos hipo ou monolobados) (critério 5) em 15 (12,7%) casos, localização anormal de megacariócitos em quatro (3,3%) casos, megacariócitos CD34-positivos não foram identificados, blastos CD34-positivos em 11 (9,3%) casos, reticulogênese discretamente aumentada (grau 1) em três (2,5%) casos e índice proliferativo (Ki-67) com mediana de 30 (de 0% a 90%). Critérios descritos por Bennett e Orazi sugestivos de SMD-h (critérios 1 e/ou 5) foram detectados em 16 (13,6%) casos. Critérios descritos por Baumann et al. sugestivos de SMD da infância (critérios 2 + 3 com ou sem 4) foram observados em 30 (25,4%) casos. Não houve diferença estatística nos achados morfológicos/imuno-histoquímicos entre a população total, adultos e crianças que evoluíram e que não evoluíram para SMD/LMA, incluindo a presença de critérios Bennett e Orazi para SMD-h do adulto. Houve diferença quanto aos critérios de Baumann et al. para CRI, e o grupo que não evoluiu para SMD/LMA apresentou com mais frequência os critérios do que o que evoluiu (p=0,036), ao contrário do previamente suposto. No entanto, ao testar esta hipótese no grupo adulto separado do pediátrico, a diferença estatística não foi comprovada. Houve uma correlação estatisticamente significante entre os valores da celularidade geral das amostras e seu índice proliferativo (p < 0,001). Pacientes adultos e pediátricos com AAA, incluindo os que evoluíram para SMD/LMA, têm características morfológicas/imuno-histoquímicas semelhantes. Algumas alterações descritas por Baumann et al. para SMD pediátrica são também encontradas em casos pediátricos e de adultos com AAA. Além disso, o índice proliferativo pode ser aumentado em casos de AAA, este dado não tem correlação com a evolução para SMD/LMA. Alterações morfológicas/imuno-histoquímicas em biópsias de medula óssea em AAA não identificaram um grupo com maior risco de progressão para SMD/LMA em nossa casuística / Acquired Aplastic Anemia (AAA) is a rare disease which progresses to MDS / AML in up to 15% of cases. When this happens, hematopathologists are asked whether the diagnosis of hypocellular Myelodisplastic Syndrome (h-MDS) would not have been confused morphologically with aplastic anemia. This study aims to identify morphological/immunophenotypical findings that could predict this adverse prognosis in adults and children ( < 19y) diagnosed as AAA and verify if those criteria match with the ones described in literature in adult h-MDS and, more recently, in pediatric MDS (Refractory cytopenia of childhood - RCC), contributing to the discussion of this \"grey zone\". We retrospectively analyzed 118 patients/bone marrow (BM) biopsies at the moment of AAA diagnosis at Clinical Hospital of São Paulo Medical School from 1993 to 2012. Diagnosis of AAA was carried out according to classical criteria. Evolution to MDS or AML was considered in the presence of at least one of the findings: significant dysgranulopoiesis or dysmegakaryocytopoiesis, more than 15% ring sideroblasts, blasts in peripheral blood or more than 5% blasts in bone marrow smear and/or biopsy, or in the presence of monosomy or deletion of the long arm of chromosome 7 by cytogenetic analysis (FISH or karyotype) of the BM. All biopsies were submitted to morphological and immunophenotypic (MPO, Glycophorin A, Factor VIII, CD34, CD117 and Ki67) evaluation by two hematopathologists without previous knowledge about the evolution of the patients. Nominal qualitative variables were analyzed by using Fisher\'s exact test to check significant disproportion between the groups. The ordinal qualitative variables were analyzed for differences between groups by Mann-Whitney test. The significance level was 5% (p = 0.05). The correlation between the overall cellularity values of the samples and their proliferative index was evaluated by nonparametric Spearman Rô test. Seventy-one (60,2%) were male, median age 24.4 years (7 months to 76 years old), 42 belongs to the pediatric group and 76 to the adults group. Median follow-up was 5.1y (range, 1 month to 22.1 years). Twelve patients (12%) (6 in each group) progressed to MDS/AML. Evaluation of morphological/immunohistochemical parameters showed irregular distribution of hematopoietic tissue in 59 (50%) cases, median BM overall cellularity of 10% (range, 1 to 40%), marrow dysgranulopoiesis (criteria 1) in 3 (2,5%) cases, abnormal localization of erythropoiesis in 13 (11%) cases, clusters of at least 20 erythroid precursors (criteria 2) in 54 (45.7%) cases, increased number of proerythroblasts (criteria 3) in 32 (27,1%) cases, increased number of mitoses of the erythroid elements (criteria 4) in 24 (20,3%) cases, marrow dysplasia of megakaryocytes (micromegakaryocytes , two or more separeted nuclei, small round nuclei) (criteria 5) in 15 (12,7%) cases, abnormal localization of megakaryocytes in 4 (3,3%) cases, CD34-positive megakaryocytes were not identified, CD34-positive blast cells (criteria 6) in 11 (9,3%) cases, increment in reticulin fibers in 3 (2,5%) cases, and median proliferative index (Ki-67) 30 (range, 0 to 90%). Criteria described by Bennett and Orazi suggestive of h-SMD (criteria 1 and/or 5) were detected in 16 (13,6%) cases. Criteria described by Baumann et al suggestive of childhood MDS (criteria 2 + 3 with or without 4) were observed in 30 (25.4%) cases. There was no statistical difference in morphological/immunohistochemical findings among total population, adults and children who developed and did not develop MDS/AML, including the presence of Bennett and Orazi criteria for h-MDS. Regarding Baumann et al criteria were more frequently identified in the group that did not progress to MDS/AML than the one that did (p=0,036), the opposite of what was expected. But when the criteria were tested in pediatric and adults\' groups separately, the statistical significance was no longer observed. There was a statistical significant correlation between the overall cellularity values of the samples and their proliferative index (p=0,001). Adult and pediatric patients with AAA, including those that progress to MDS/AML, have similar morphological/immunohistochemical characteristics. Some changes described by Baumann et al for pediatric MDS are also found in pediatric and adults\' cases with AAA. In addition, the proliferative index may be increased in cases of AAA and this finding has no correlation with progression to MDS/AML. Morphological/immunohistochemical changes in bone marrow biopsies in AAA have failed to identify a group at higher risk for progression to MDS/AML in our series

Recentemente, a expressão gênica dos receptores TLR foi encontrada em diversos tipos de células tumorais. A sua participação na biologia do câncer é controversa já que foram descritas ações pró e anti-tumorais após a ativação de sua sinalização. Na Leucemia Mielóide Crônica (LMC) nada se tem demonstrado. BCR-ABL é uma oncoproteína quimérica cujo sítio tirosina quinasa constitutivamente ativado promove inúmeras vias de sinalizações que desencadeia a transformação celular. Este trabalho se inicia com a hipótese de existir uma relação entre o oncogene BCR-ABL e a expressão dos receptores TLRs. Nós verificamos em células murinas TonB210.1 com expressão de BCR-ABL induzível por doxiciclina que Tlr1 e Tlr2 tem sua expressão gênica relativa aumentada na presença da oncoproteína. A regulação positiva de Tlr1 é dependente da ação tirosina quinasa de BCR-ABL. Também mostramos que as vias p38 e JNK estão reprimindo a expressão de Tlr1 induzida por BCR-ABL enquanto que a via ERK é utilizada pelo BCR-ABL para promovê-la. Por outro lado, observamos que a ligação de TLR1/TLR2 com seu agonista sintético Pam3CSK4 em células TonB210.1 BCR-ABL positivas induz um aumento da produção de IL-6 e leva ao aumento da resistência a morte quando induzida pelas drogas Ara-C e VP16. Em conclusão, estes resultados indicam que BCR-ABL esta regulando a expressão gênica de alguns TLRs. Por tanto esses dados contribuem para a compreensão sobre o comportamento de células tumorais BCR-ABL positivas em um contexto de infecção e por conseqüência, dão margem ao estudo de novos alvos de fator de risco para a LMC. / Recently, the gene expression of TLR receptors have been described in several kinds of tumour cells. Its participation in cancer biology is controversial because roles were already been described in pro and anti-tumoral activities after their signaling activation. In Chronic Myeloid Leukemia (CML) there are no published data. BCR-ABL is a quimeric protein and its tyrosine-kinase site is activated constitutively. Thus, many signaling pathways are activated and several cell processes are altered thereby resulting in cellular transformation. This work has started with the hypothesis that a putative relationship between the oncogene BCR-ABL and the expression of TLR receptors could exists. We verified in murine cells TonB210.1 BCR-ABL expression inducible by doxycicline that Tlr1 and Tlr2 have their relative gene expression up-regulated in the presence of the oncoprotein. Therefore the Tlr1 regulation is dependent of BCR-ABL tyrosine kinase action. Using MAPK inhibitors we showed that p38 and JNK pathways are suppressing the TLR1 induction by BCR-ABL while ERK pathway is used by the oncoprotein for promote it. On the other hand, we observed in TonB210.1 BCR-ABL positive cells that the binding of TLR1/TLR2 heterodimer to their synthetic agonist Pam3CSK4 induced an increased production of IL-6 and when these cells were induced by Ara-C and VP-16 drugs the apoptosis resistance increased. In conclusion, these results indicate that the oncoprotein regulates the gene expression of some TLRs. Therefore, this fact gives us data about the behavior of BCR-ABL positive tumor cells in the context of infection and in consequence the study of new risk factor targets for CML.