tbuckley/cabot-search huggingface dataset:
Palliative care referral patterns of adolescent and young adult patients at a comprehensive cancer center.
Authors: Bethany Lockwood, Olanipekun Lanny Ntukidem, Sarah Ehrman, Maryam B. Lustberg, Bhavana Bhatnagar, Dori Klemanski
Journal: Journal of Clinical Oncology (2019)

63 Background: Adolescent and young adults (AYA) diagnosed with cancer have distinct physical, developmental and psychosocial needs that are often unmet during oncology treatment. Such needs are further intensified for AYA patients with an advanced cancer diagnosis. Palliative Care (PC), specialized care for patients and families with serious illness, can address these needs throughout the disease trajectory including symptom management, supportive communication, and advance care planning. The incorporation of PC remains suboptimal despite evidence that palliative services can improve quality of life. In an effort to identify strategies to advance access to PC for the AYA population at our institution, the referral pattern to PC was studied. Methods: A retrospective chart review was performed to identify referral patterns to PC in the AYA population (ages 18-39) from July 2017 through June 2019 at a National Cancer Institute designated comprehensive cancer center. Descriptive statistics were utilized to summarize referral patterns and trends. Results: In the past 2 years, 1,894 AYA patients established oncology care at our institution. The most common AYA cancer diagnoses included hematologic 20.8% (n=944), thyroid 10.8% (n=490), brain 9.9% (n=451) and breast 9.1% (n=414). There were 311 (16%) referrals placed to PC, mostly in the inpatient setting (81.4%). Less than half (43%) of the inpatient referrals had a post-discharge follow-up appointment in the PC clinic. Multiple disease-specific service lines were represented including leukemia (40%), colorectal (14.5%), sarcoma (9%) and breast (9%). Quarterly volumetric trends remained static over the 2 years (average number of referrals: 54/quarter). The average age at cancer diagnosis in the AYA population was 30 years and 32.7 years (range 19-39) at time of PC referral. This was consistent with the average length of time from initial diagnosis to PC referral of 2.8 years. Conclusions: Comprehensive oncology care in the AYA population should include PC. Yet, involvement of PC in the AYA population during oncologic treatment was limited. Future research will investigate optimal models of integrative PC to address the unique needs of AYA cancer.
Neoadjuvant and adjuvant pembrolizumab (pembro) plus standard of care (SOC) in patients (pts) with resectable locally advanced (LA) head and neck squamous cell carcinoma (HNSCC): The phase III KEYNOTE-689 study
Authors: E. Cohen, R. Uppaluri, N. Lee, W. Westra, R. Haddad, S. Temam, C. Le Tourneau, R. Chernock, S. Safina, Y. Tao, A. Klochikhin, A. Meirovitz, I. Brana, J.Y. Ge, R. Swaby, B. Bidadi, D. Adkins
Journal: Annals of Oncology (2019)
Diverging Clonal Evolution during Sequential Therapy with Chemoimmunotherapy Followed By BTK Inhibitors
Authors: Inhye E Ahn, Yun-Ching Chen, Chingiz Underbayev, Erika M Gaglione, Clare Sun, Susan Soto, Pia Nierman, Mehdi Pirooznia, Adrian Wiestner
Journal: Blood (2019)
Complement Promotes Gvhd through Suppressing Autophagy in Recipient Dendritic Cells after Allogeneic Hematopoietic Cell Transplantation in Mice
Authors: Hung D Nguyen, David Bastian, Sandeepkumar Kuril, Mohammmed Dany, David Fairlie, Carl Atkinson, Besim Ogretmen, Stephen Tomlinson, Xue-Zhong Yu
Journal: Blood (2017)
Detectable Circulating Tumor DNA 28 Days after the CD19 CAR T-Cell Therapy, Axicabtagene Ciloleucel, Is Associated with Poor Outcomes in Patients with Diffuse Large B-Cell Lymphoma
Authors: Matthew J. Frank, Nasheed Hossain, Ali Bukhari, Erin Dean, Jay Y. Spiegel, Gursharan K. Claire, Ilan M. Kirsch, Allison P. Jacob, Chelsea D Mullins, Lik Wee Lee, Katherine A. Kong, Juliana Craig, Crystal L. Mackall, Aaron P. Rapoport, Saurabh Dahiya, Frederick L. Locke, David B Miklos
Journal: Blood (2019)
Gene expression analysis in h-ras12v transgenic mouse treated with benzoyloxycinnamaldehyde
Authors: Byoung-Mog Kwon, Heun-Sik Lee, So Young Lee, Dong Cho Han, Dae-Yeul Yu
Journal: Cancer Research (2008)

634  2’-Benzoyl-oxycinnamaldehyde (BCA) was synthesized by replacing hydroxyl group of 2’-Hydroxycinnamaldehyde (HCA) with benzoyl group. These cinnamaldehyde have been reported to induce apoptosis in human carcinoma via reactive oxygen species (ROS). To determine whether gene expression changed significantly after BCA treatment, we performed a cDNA microarray analysis to identify 42 genes whose expression is down-regulated in the H-ras12V transgenic mouse including genes related to ROS mechanism and immune response (Aconitase, metallothionein 1, metallothionein 2, and purine nucleoside phosphorylase). RT-PCR and Immunohistochemical analysis results paralleled the microarray results for two selected genes, Mt-1 and 2. Our results suggest that the apoptosis of tumor cells via BCA might be promoted by inhibition of Mt-1/2 as scavengers of ROS.
Interactions between host and gut microbiota in domestic pigs: a review
Authors: Yadnyavalkya Patil, Ravi Gooneratne, Xiang-Hong Ju
Journal: Gut Microbes (2019)

It is well established that pig gut microbiota plays a critical role in maintaining metabolic homeostasis as well as in a myriad of physiological, neurological and immunological functions; including protection from pathogens and digestion of food materials – some of which would be otherwise indigestible by the pig. A rich and diverse gut microbial ecosystem (balanced microbiota) is the hallmark of good health; while qualitative and quantitative perturbations in the microbial composition can lead to development of various diseases. Alternatively, diseases caused by stressors or other factors have been shown to negatively impact the microbiota. This review focuses primarily on how commensal microorganisms in the gastrointestinal tract of pigs influence biochemical, physiological, immunological, and metabolic processes within the host animal.
Biomarker-Informed Treatment Decisions in Cognitively Impaired Patients Do Not Apply to Preclinical Alzheimer Disease—Reply
Authors: James F. Burke, Kenneth M. Langa
Journal: JAMA Internal Medicine (2019)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA Internal Medicine HomeNew OnlineCurrent IssueFor Authors Podcast Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA Internal Medicine journal
Excellent Outcomes with Reduced Frequency of Vincristine and Dexamethasone Pulses in Children with National Cancer Institute (NCI) Standard-Risk B Acute Lymphoblastic Leukemia (SR B-ALL): A Report from Children's Oncology Group (COG) Study AALL0932
Authors: Anne Angiolillo, Reuven J. Schore, John Kairalla, Meenakshi Devidas, Karen R. Rabin, Patrick A. Zweidler-McKay, Michael J. Borowitz, Brent L Wood, Andrew J. Carroll, Nyla A. Heerema, Mary V. Relling, Ashley Lane, Kelly Maloney, Cindy Wang, William L. Carroll, Naomi Winick, Elizabeth A. Raetz, Mignon L. Loh, Stephen P. Hunger
Journal: Blood (2019)
Long-term Consequences in Trauma: At the Center of the Public Health Approach Is the Survivor’s Voice
Authors: Rochelle A. Dicker, Laurie J. Punch
Journal: JAMA Surgery (2019)

Our website uses cookies to enhance your experience. By continuing to use our site, or clicking "Continue," you are agreeing to our Cookie Policy | Continue JAMA Surgery HomeNew OnlineCurrent IssueFor Authors Podcast Publications JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry (1919-1959) JN Learning / CMESubscribeJobsInstitutions / LibrariansReprints & Permissions Terms of Use | Privacy Policy | Accessibility Statement 2023 American Medical Association. All Rights Reserved Search All JAMA JAMA Network Open JAMA Cardiology JAMA Dermatology JAMA Forum Archive JAMA Health Forum JAMA Internal Medicine JAMA Neurology JAMA Oncology JAMA Ophthalmology JAMA Otolaryngology–Head & Neck Surgery JAMA Pediatrics JAMA Psychiatry JAMA Surgery Archives of Neurology & Psychiatry Input Search Term Sign In Individual Sign In Sign inCreate an Account Access through your institution Sign In Purchase Options: Buy this article Rent this article Subscribe to the JAMA Surgery journal
Cultural disparities in end-of-life choices and advanced care planning in cancer patients.
Authors: Vatsala Katiyar, Ishaan Vohra, Sindhu Janarthanam Malapati, Sunny Singh, Prasanth Lingamaneni, Orlanda Mackie, Ruhi Shariff
Journal: Journal of Clinical Oncology (2019)

3 Background: Integration of palliative care early in treatment of malignancy improves quality of life and curbs non-beneficial end of life care. However, there are differences in utilization of palliative services based on cultural background. We aim to identify such differences in a safety net hospital with adiverse patient population. Methods: This is a single institution retrospective study of adults with cancer who had inpatient palliative care encounter (PCE) between 2012-2017. A representative sample of 130 patients from 7 major ethnicities was included. Statistical analysis was performed using STATA. Results: Only 8.4% of all patients had a preceding outpatient PCE. Very few patients had advance directives prior to PCE (range 0-30% for individual ethnicities). As a reflection of their challenging social situation, 5.3% were homeless, 76.1% lived in someone else’s home, &lt;10% had English as primary language (except Caucasian American and African American.) Healthcare utilization in the last 3 months of life varied widely between groups- maximum was in African American and Hispanic patients with ≥3 emergency room visits in 30% and 25% respectively. Table with time to important endpoints and setting of death is attached. Conclusions: Palliative service was involved very late in care, with most having significant challenges to complex care discussions including lack of social support and language barrier. Setting of death (ICU versus home) varied by ethnicity, and some groups had high utilization of aggressive end of life care. Understanding the underlying cultural intricacies leading to these choices will help physicians better navigate care and should be a future focus of study. [Table: see text]
Functional Screening of Candidate Causal Genes for Insulin Resistance in Human Preadipocytes and Adipocytes
Authors: Zhifen Chen, Haojie Yu, Xu Shi, Curtis R. Warren, Luca A. Lotta, Max Friesen, Torsten B. Meissner, Claudia Langenberg, Martin Wabitsch, Nick Wareham, Mark D. Benson, Rob E. Gerszten, Chad A. Cowan
Journal: Circulation Research (2019)

Rationale: Genome-wide association studies have identified genetic loci associated with insulin resistance (IR) but pinpointing the causal genes of a risk locus has been challenging. Objective: To identify candidate causal genes for IR, we screened regional and biologically plausible genes (16 in total) near the top 10 IR-loci in risk-relevant cell types, namely preadipocytes and adipocytes. Methods and Results: We generated 16 human Simpson-Golabi-Behmel syndrome preadipocyte knockout lines each with a single IR-gene knocked out by lentivirus-mediated CRISPR (clustered regularly interspaced short palindromic repeats)/Cas9 system. We evaluated each gene knockout by screening IR-relevant phenotypes in the 3 insulin-sensitizing mechanisms, including adipogenesis, lipid metabolism, and insulin signaling. We performed genetic analyses using data on the genotype-tissue expression portal expression quantitative trait loci database and accelerating medicines partnership type 2 diabetes mellitus Knowledge Portal to evaluate whether candidate genes prioritized by our in vitro studies were expression quantitative trait loci genes in human subcutaneous adipose tissue, and whether expression of these genes is associated with risk of IR, type 2 diabetes mellitus, and cardiovascular diseases. We further validated the functions of 3 new adipose IR genes by overexpression-based phenotypic rescue in the Simpson-Golabi-Behmel syndrome preadipocyte knockout lines. Twelve genes, PPARG , IRS-1 , FST , PEPD, PDGFC , MAP3K1 , GRB14 , ARL15 , ANKRD55 , RSPO3 , COBLL1 , and LYPLAL1 , showed diverse phenotypes in the 3 insulin-sensitizing mechanisms, and the first 7 of these genes could affect all the 3 mechanisms. Five out of 6 expression quantitative trait loci genes are among the top candidate causal genes and the abnormal expression levels of these genes ( IRS-1 , GRB14 , FST , PEPD , and PDGFC ) in human subcutaneous adipose tissue could be associated with increased risk of IR, type 2 diabetes mellitus, and cardiovascular disease. Phenotypic rescue by overexpression of the candidate causal genes ( FST , PEPD , and PDGFC ) in the Simpson-Golabi-Behmel syndrome preadipocyte knockout lines confirmed their function in adipose IR. Conclusions: Twelve genes showed diverse phenotypes indicating differential roles in insulin sensitization, suggesting mechanisms bridging the association of their genomic loci with IR. We prioritized PPARG , IRS-1 , GRB14, MAP3K1 , FST , PEPD , and PDGFC as top candidate genes. Our work points to novel roles for FST , PEPD , and PDGFC in adipose tissue, with consequences for cardiometabolic diseases.
From Simple to Architecturally Complex Hydrogel Scaffolds for Cell and Tissue Engineering Applications: Opportunities Presented by Two‐Photon Polymerization
Authors: Jiaxi Song, Christos Michas, Christopher S. Chen, Alice E. White, Mark W. Grinstaff
Journal: Advanced Healthcare Materials (2019)

Direct laser writing via two-photon polymerization (2PP) is an emerging micro- and nanofabrication technique to prepare predetermined and architecturally precise hydrogel scaffolds with high resolution and spatial complexity. As such, these scaffolds are increasingly being evaluated for cell and tissue engineering applications. This article first discusses the basic principles and photoresists employed in 2PP fabrication of hydrogels, followed by an in-depth introduction of various mechanical and biological characterization techniques used to assess the fabricated structures. The design requirements for cell and tissue related applications are then described to guide the engineering, physicochemical, and biological efforts. Three case studies in bone, cancer, and cardiac tissues are presented that illustrate the need for structured materials in the next generation of clinical applications. This paper concludes by summarizing the progress to date, identifying additional opportunities for 2PP hydrogel scaffolds, and discussing future directions for 2PP research.
MIA-Sig: multiplex chromatin interaction analysis by signal processing and statistical algorithms
Authors: Minji Kim, Meizhen Zheng, Simon Zhongyuan Tian, Byoungkoo Lee, Jeffrey H. Chuang, Yijun Ruan
Journal: Genome biology (2019)

Abstract The single-molecule multiplex chromatin interaction data are generated by emerging 3D genome mapping technologies such as GAM, SPRITE, and ChIA-Drop. These datasets provide insights into high-dimensional chromatin organization, yet introduce new computational challenges. Thus, we developed MIA-Sig, an algorithmic solution based on signal processing and information theory. We demonstrate its ability to de-noise the multiplex data, assess the statistical significance of chromatin complexes, and identify topological domains and frequent inter-domain contacts. On chromatin immunoprecipitation (ChIP)-enriched data, MIA-Sig can clearly distinguish the protein-associated interactions from the non-specific topological domains. Together, MIA-Sig represents a novel algorithmic framework for multiplex chromatin interaction analysis.
Interobserver Reliability of Programmed Cell Death Ligand-1 Scoring Using the VENTANA PD-L1 (SP263) Assay in NSCLC
Authors: Gareth H. Williams, Andrew G. Nicholson, David R.J. Snead, Erik Thunnissen, Sylvie Lantuejoul, Paul Cane, Keith M. Kerr, Marco Loddo, Marietta L.J. Scott, Paul W. Scorer, Craig Barker
Journal: Journal of Thoracic Oncology (2019)

The VENTANA PD-L1 (SP263) Assay is approved for use with anti-programmed cell death-1/programmed cell death ligand-1 (PD-1/PD-L1) therapies in NSCLC and urothelial carcinoma. Here, we investigate interobserver reliability of the SP263 assay, applied to PD-L1 scoring of tumor cells (TCs) in NSCLC. Six practicing European pulmonary pathologists independently scored the proportion of TCs expressing PD-L1 (TC score) from 200 archival, commercially sourced, formalin-fixed paraffin-embedded NSCLC resections stained using the SP263 assay. Agreement in scores was analyzed using the intraclass correlation coefficient and concordance in patient's classification using Fleiss' kappa. Results from 172 samples showed strong pair-wise correlations between pathologists (R2 >0.89) for TC scoring with an intraclass correlation coefficient of 0.96. Overall agreement was greater than 90% for TC of 1% and above, and greater than 94% for TCs of at least 25% and at least 50%. Fleiss' kappa showed substantial agreement for TC of 1% and above, and almost perfect agreement for TCs of at least 25% and at least 50%. Assessment of TC score in NSCLC was highly reproducible using the SP263 assay, building confidence in the accuracy of this assay in selection of patients for anti-PD-1/PD-L1 therapy.
Clinical Outcomes and Characteristics of Patients (pts) with FLT3-Internal Tandem Duplication (FLT3-ITD)-Mutated Relapsed/Refractory (R/R) Acute Myeloid Leukemia (AML) Undergoing Hematopoietic Stem Cell Transplant (HSCT) after Quizartinib (Q) or Salvage Chemotherapy (SC) in the Quantum-R Trial
Authors: Siddhartha Ganguly, Jorge E. Cortes, Alwin Krämer, Mark J. Levis, Giovanni Martinelli, Alexander E. Perl, Nigel H. Russell, Meena Arunachalam, Guy Gammon, Arnaud Lesegretain, Derek E. Mires, Ruth Namuyinga, Yufen Zhang, Samer K. Khaled
Journal: Blood (2019)
Role of Glasgow prognostic score in chemo-naïve patients with advanced biliary tract cancer and good performance status
Authors: T. Moriwaki, N. Hasegawa, Y. Yamamoto, T. Yamada, M. Kanai, S. Kobayashi, H. Eguchi, S. Seo, A. Taketomi, K. Yoshimura, E. Hatano, H. Nagano, T. Ioka
Journal: Annals of Oncology (2019)
Transcriptional Plasticity Compensates for Ikaros and Aiolos Proteasomal Degradation and Mediates Resistance to IMiDs in Multiple Myeloma (MM)
Authors: Paola Neri, Ines Tagoug, Ranjan Maity, Caleb K Stein, Madison Kong, Jonathan Keats, David Soong, Christopher Chiu, P. Leif Bergsagel, Nizar J. Bahlis
Journal: Blood (2017)
Neoadjuvant immunotherapy with combined ipilimumab and nivolumab in patients with melanoma with primary or in transit disease
Authors: J. Weber, V. Glutsch, E. Geissinger, L. Haug, J.F. Lock, F. Schneider, H. Kneitz, M. Goebeler, B. Schilling, A. Gesierich
Journal: British Journal of Dermatology (2019)

The introduction of new therapeutic agents has revolutionized the treatment of metastatic melanoma. The approval of adjuvant anti-programmed death-1 monotherapy with nivolumab or pembrolizumab, and dabrafenib plus trametinib has recently set a new landmark in the treatment of stage III melanoma. Now, clinical trials have shown that immune checkpoint blockade can be performed in a neoadjuvant setting, an approach established as a standard therapeutic approach for other tumour entities such as breast cancer. Recent studies suggest that a pathological response achieved by neoadjuvant immunotherapy is associated with long-term tumour control and that short neoadjuvant application of checkpoint inhibitors may be superior to adjuvant therapy. Most recently, neoadjuvant ipilimumab plus nivolumab in stage III melanoma was reported. With two courses of dose-optimized ipilimumab (1 mg kg-1 ) combined with nivolumab (3 mg kg-1 ), pathological responses were observed in 77% of patients, while only 20% of patients experienced grade 3 or 4 adverse events. However, the neoadjuvant trials employing combined immune checkpoint blockade conducted so far have excluded patients with in transit metastases, a common finding in stage III melanoma. Here we report four patients with in transit metastases or an advanced primary tumour who have been treated with neoadjuvant ipilimumab plus nivolumab according to the OpACIN-neo trial scheme (arm B). All patients achieved radiological disease control and a pathological response. None of the patients has relapsed so far. Linked Comment: Blankenstein and van Akkooi. Br J Dermatol 2020; 183:421-422.
Adult soft tissue myoepithelial carcinoma: Treatment outcomes and efficacy of chemotherapy
Authors: F.E. Chamberlain, E. Cojocaru, M. Scaranti, J. Noujaim, K. Thway, C. Fisher, C. Messiou, D.C. Strauss, A. Miah, S. Zaidi, C. Benson, S. Gennatas, R.L. Jones
Journal: Annals of Oncology (2019)
GPs call for BMA to take “urgent action” on drug shortages
Authors: Elisabeth Mahase
Journal: BMJ (2019)

GPs have demanded that the BMA General Practitioners Committee (GPC) England take “urgent action” to mitigate the effects of drug shortages.

The motion, which was passed in full at the annual Local Medical Committees (LMC) England conference held in London on 22 November, called for GPC England to recognise the “adverse impact” of shortages on patients and the GP workload.

The committee was instructed to secure extra funding to support general practices in dealing with current shortages and explore how to make “pharmacists responsible for identifying appropriate and available alternatives.”

Ray McMurray, a GP from …