This open access book is a step-by-step introduction on how shell scripting can help solve many of the data processing tasks that Health and Life specialists face everyday with minimal software dependencies. The examples presented in the book show how simple command line tools can be used and combined to retrieve data and text from web resources, to filter and mine literature, and to explore the semantics encoded in biomedical ontologies. To store data this book relies on open standard text file formats, such as TSV, CSV, XML, and OWL, that can be open by any text editor or spreadsheet application. The first two chapters, Introduction and Resources, provide a brief introduction to the shell scripting and describe popular data resources in Health and Life Sciences. The third chapter, Data Retrieval, starts by introducing a common data processing task that involves multiple data resources. Then, this chapter explains how to automate each step of that task by introducing the required commands line tools one by one. The fourth chapter, Text Processing, shows how to filter and analyze text by using simple string matching techniques and regular expressions. The last chapter, Semantic Processing, shows how XPath queries and shell scripting is able to process complex data, such as the graphs used to specify ontologies. Besides being almost immutable for more than four decades and being available in most of our personal computers, shell scripting is relatively easy to learn by Health and Life specialists as a sequence of independent commands. Comprehending them is like conducting a new laboratory protocol by testing and understanding its procedural steps and variables, and combining their intermediate results. Thus, this book is particularly relevant to Health and Life specialists or students that want to easily learn how to process data and text, and which in return may facilitate and inspire them to acquire deeper bioinformatics skills in the future.

The seventh in Springer's landmark series of edited volumes on one of the highest-profile subjects in contemporary medicine and scientific endeavour, this volume sets out to cover a staggering range of research into the medical applications of stem cell research. While stem cells are the very stuff of life for multicellular organisms, including us humans, the cancer stem cell is a morbid entity with a robust resistance to therapies including conventional chemotherapy. This authoritative publication explains the regenerative potential of stem cells and their mesenchymal progeny, reviewing clinical applications of the latter in the treatment of cancer, diabetes and neurodegenerative pathologies. It covers the entire range of stem cells with known potential for therapeutic use, from human embryonic to germ cell-derived pluripotent stem cells and hematopoietic stem cells. The chapters also deal with the role of TGF-beta in propagating human embryonic stem cells, and in facilitating their differentiation. Featuring discussions of molecular signaling pathways that modulate mesenchymal stem cell self-renewal and much more, this book is certain to have broad appeal among academicians and physicians alike.

Incidentalomas, or tumors discovered unintentionally by radiologists, are a problem that all radiologists face in their practice. This issue provides not only an overview of neoplasms of the CNS, liver, chest, kidneys, pancreas, and adrenal glands commonly discovered during radiologic examinations but also provides a framework for understanding the legal implications and cost considerations involved for radiologists.

Angiogenesis is the growth of new blood vessels and is a key process which occurs during pathological disease progression. Excessive and damaging angiogenesis occurs in diseases such as cancer, diabetic retinopathies, age-related macular degeneration and atherosclerosis. In other diseases such as stroke and myocardial infarction, insufficient or improper angiogenesis results in tissue loss and ultimately higher morbidity and mortality. In this book we will begin by providing the reader with an overview of the process of angiogenesis including normal embryological development of blood vessels. The following chapters will each focus on a key angiogenic disease incorporating current scientific knowledge concerning the causes of activation of the "angiogenic switch," pathological consequences, current treatment options and future perspectives. Where appropriate, results from pre-clinical trials, novel imaging modalities and nanotechnological approaches will be incorporated into these sections. Finally, since it is now believed that the process of angiogenesis operated via different signalling mechanisms in different vascular beds, we will discuss our current understanding of this phenomenon. The target audience for this book would include researchers in all the basic sciences; post-graduate students at Universities and Institutes; pharmaceutical industries; clinicians working in vascular biology or tissue imaging; pathologists; neurologists; tumour biologists; ophthalmologists and cardiologists.

This issue compiled by Dr. Nancy Berliner focuses on such topics as: A History of Bone Marrow Transplantation, Hematopoietic Stem Cell Transplantation for Severe Combined Immune Deficiency Or What the Children have Taught Us; HLA-haploidentical Donor Transplantation in Severe Combined Immunodeficiency; Haploidentical Bone Marrow Transplantation in Primary Immune Deficiency: Stem Cell Selection and Manipulation; Suffering from Severe Combined Immunodeficiency; Herpes Viruses in Transplant Recipients: HSV, VZV, Human Herpes Viruses, and EBV; and Immunotherapy and Vaccination After Transplant: The Present, the Future.?

Advances in molecular biology over the last several decades are being steadily applied to our understanding of the molecular biology of cancer, and these advances in knowledge are being translated into the clinical practice of oncology. This volume explores some of the most exciting recent advances in basic research on the molecular biology of cancer and how this knowledge is leading to advances in the diagnosis, treatment, and prevention of cancer.

* This series provides a forum for discussion of new discoveries, approaches, and ideas * Contributions from leading scholars and industry experts * Reference guide for researchers involved in molecular biology and related fields

The book is based on lectures presented on the International Summer School on Biophysics held in Croatia in September 2009. The advantage of the School is that it provides advanced training in very broad scope of areas related to biophysics contrary to other similar schools or workshops that are centered mainly on one topic or technique. In this volume, tenth in the row, the papers in the field of biophysics are presented. The topics are biological phenomena from single protein to macromolecular aggregations structure by using variant physical methods (NMR, EPR, FTIR, Mass Spectrometry, etc.). The interrelationship of supramolecular structures and their functions is enlightened by applications of principals of these physical methods in the biophysical and molecular biology context.

This book will provide the latest advances in molecular and cellular biology for establishing the foundation of a complete understanding of the mechanisms of breast differentiation leading to cancer prevention. The authors are based on the epidemiological evidence indicating that early first full term pregnancy is a protective factor in human against breast cancer and they have used this paradigm and developed experimental systems in both in vivo and in vitro that have demonstrated mechanistically how the differentiation at the organ and cellular level takes place. This knowledge has provided the blueprint for developing better understanding of the basis of cancer prevention. The transcriptoma analysis of the breast of pre and post-menopausal women has established a genomic signature imprinted in the breast that differs according to the reproductive history of the woman showing that early first full term pregnancy reprogram the organ. This reprogramming takes place at the chromatin level by changing the transcriptional process. The modification of the transcriptional control is due to the expression of non coding RNA sequences and posttranscriptional control driven by the splicesome. The plasticity of the genome of the human breast make possible this reprogramming that is not only induced by the physiological process of pregnancy but by the use of hormones that mimic pregnancy without pregnancy. The author have established the basis of clinical trials for prevention and the discovery that short 15aa peptides of the chorionic gonadotropin hormone can be used in human breast cancer prevention based on preclinical and clinical data.

Adding to a vitally important cycle of publications covering the latest research developments in our understanding of neoplasms affecting the human central nervous system, this edition focuses on numerous aspects of pineal, pituitary, and spinal tumors. As with the previous volumes in the series, this latest work addresses a central imperative in cancer research the need to standardize classifications, written definitions and investigative guidelines in order to achieve a measure of shared objectivity among academics engaged in one of the most important medical endeavors of our era. It brings together the very latest work by oncologists, neurosurgeons, physicians, research scientists, and pathologists, providing the medical community with a wealth of data and results that, taken together, will advance the cause of cancer research. The volume synthesizes work on diagnosis, drug development, and therapeutic approaches that are typically scattered in a variety of journals and books. It features promising recent work in applying molecular genetics to clinical practice and evidence-based therapy, covering molecular profiling of tumors as well as a number of surgical treatments such as resection and radiosurgery. Together with its counterpart publications, it represents a much-needed central resource that will inform and guide future research efforts."

This two-part issue of Endocrinology and Metabolism Clinics of North America provides the endocrinologist with comprehensive essential updates about tumors of the gastroenteropancreatic system.? Topics covered include the history and development of the gastroenteropancreatic endocrine axis; the changing face and epidemiology of neuroendocrine tumors (NETs); chromogranins current state of the art, pathology of gastroenteropancreatic (GEP) disorders; new and emerging syndromes related to gastrointestinal (GI) hormones; an update on incretins; prospects for ghrelin in the clinic, obesity/appetite and hedonism; GI motility disorders; gastric bypass and GI hormones; pancreatic exocrine function and GI hormones; harnessing the pancreatic stem cell; how to diagnose NETs before there are METs; NETs in kids: combining the SEER data for children and adults with site differences; novel biomarkers for NETs; standard imaging techniques for NETs; novel peptide imaging: glucagon receptor; signaling mechanism in NETs as targets for therapy; update on clinical trials; nutrition and the GEP; peptide radiotherapy; in vitro analysis of NETs: the role of angiogenesis; modern lab evaluation of peptide and amines: a continuing role for radioimmunoassay?; surgery/surgical management of NETs; and evaluation and quality of life in NETs patients.

Positron emission tomography (PET) has been approved for the diagnosis and staging of gynecologic malignancies for several years now.? This issue reviews the imaging of cervical, uterine, and endometrial cancers.? There is also an articles on the uses of PET/CT for imaging normal and abnormal anatomy, as well as gynecologic imaging using other modalities.? Lastly this issue contains a review of newer radionuclide tracers currently in development.

This issue serves as a timely review of both the genetic and genomic factors resulting in a predisposition to human cancer.? There is now strong evidence to support the use of genetic testing for cancer predisposition in the practice of preventive medicine, and at the same time, there is emerging new literature defining the role of genomic approaches to assessment of cancer predisposition.? Articles address predisposition syndromes in the areas of breast cancer, lower GI cancer, genitourinary cancer, pediatric cancer, endocrine cancer, and hematologic malignancy.

This book provides multidisciplinary reviews of the mechanism of action and uses of methotrexate in the treatment of cancer, psoriasis, gynecologic and inflammatory diseases. The intended audience is composed of clinicians involved in the care of patients suffering from oncologic, gynecologic, rheumatic diseases as well as scientists involved in research into the pathogenesis and treatment of these diseases. This book is unique in that it provides a single, state-of-the-art source for information regarding the mechanism and use of methotrexate in many different areas of medicine.

This issue of the Surgical Oncology Clinics will focus on new advances in Colorectal Cancer and will include articles on Management of Multiple Adenomatous Polyps, Imaging of Rectal Cancers, Optimal Management of Small Rectal Cancers, Neoadjuvant Therapy for Locally Advanced Rectal Cancer, Low Anterior Rectal Cancer Resection, Laparoscopy, Adjuvant Therapy, Multidisciplinary Approach to Recurrent/Unresectable Rectal Cancer, Stage IV CRC, plus other articles.

Bacterial infections cause substantial morbidity and mortality in cancer patients. These infections always remained enigmatic due to initial reluctance of cancer researchers in understanding their etiologic potential. Etiological association of bacteria with cancer gained credibility after discovery of carcinogenic potential of Helicobacter pylori. Moreover, other suspected associations including Salmonella typhi and gallbladder cancer, Streptococcus bovis and colon cancer, Chlamydia psittaci and ocular adnexal lymphoma and Chlamydia pneumoniae with lung cancer, etc. are looking for a legitimate appraisal to unravel their etiologic potential without prejudice. In contrary, bacteria also show protective role in certain types of cancer. Certain agents derived from bacteria are successfully in practice for the management of cancer. The integrate association of bacteria and cancer is evident in both positive and negative aspects. The role of bacteria in cancer etiology and treatment is vigorously studied since last few years. Present book tries to provide current status of research undergoing in above direction, with the glimpses of future possibility for using microbiological knowledge in the management of this deadly killer. This book will interest specialists dealing with cancer associated infectious complications, researchers working in the field of cancer biology, teachers and scientists in the field of microbiology, biotechnology, medicine and oncology. The unique coverage of bacteriology and cancer association in both positive and negative way can usher into development of novel thrust area for microbiology students and experts.

Dr. Soetikno has organized a comprehensive issue devoted to the detection and diagnosis of non-polypoid colorectal neoplasms with special emphasis on sessile or flat colon adenoma.? Top experts in the field have supplied the latest clinical information in the following areas: Non-Polypoid Colorectal Neoplasms in Ulcerative Colitis; Detection and Diagnosis of Non-Polypoid Colorectal Neoplasms; Image-Enhanced Endoscopy to Detect and Diagnose Non-Polypoid Colorectal Neoplasms; CT Colonography and Non-Polypoid Colorectal Neoplasms, as well as Endoscopic Mucosal Resection of Non-Polypoid Colorectal Neoplasms.? This issue is an important one as there are not many references on the topics that are as comprehensive.

This is the first book to provide a broad framework for obtaining an in depth understanding of the state-of-the-art knowledge on abnormalities of non-coding RNAs found to be associated with colorectal cancer pathogenesis. Readers will discover possible mechanisms underlying the substantial roles played by non-coding RNAs in molecular hallmarks of colorectal cancer. This work further provides the comprehensive overview and novel insights into using of non-coding RNAs as colorectal cancer biomarkers enabling early detection of the disease, prognostic stratification of the patients and prediction of therapeutic response. The reader is introduced to the overview of modern non-coding RNAs-based therapeutic strategies, and summary of their preclinical testing performed in colorectal cancer. The work is written for researchers who want to explore current state of the knowledge in this interesting field of molecular oncology.

This two part issue of PET Clinics provides a comprehensive review to the important topic of Breast Cancer. Although the focus of this issue is the use of PET and PET/CT in the diagnosis, staging, treatment planning, and follow up for patients with breast cancer, there are also articles providing correlates from other imaging modalities.

This issue highlights some of the exciting new developments in pediatric oncology and hematology.? Three articles are devoted to pediatric leukemia, which remains the most common form of pediatric cancer.? Specifically, articles address ALL, AML, and leukemia in patients with Down syndrome. Other articles that address pediatric oncology include CNS tumors and neuroblastoma as well as advances in cancer immunotherapy. A very interesting article addresses the challenges experienced by adults who survived a childhood cancer. The hematology articles in this issue cover aspects that most clinicians see on a regular basis-sickle cell disease, thalassemia, and hemophilia, and ITP.