tbuckley/cabot-search huggingface dataset:
Simplified Risk Stratification Model for Patients With Waldenström Macroglobulinemia
Authors: Saurabh Zanwar, Jennifer Le-Rademacher, Eric Durot, Shirley D’Sa, Jithma P. Abeykoon, Patrizia Mondello, Shaji Kumar, Shayna Sarosiek, Jonas Paludo, Saurabh Chhabra, Joselle M. Cook, Ricardo Parrondo, Angela Dispenzieri, Wilson I. Gonsalves, Eli Muchtar, Sikandar Ailawadhi, Robert A. Kyle, S. Vincent Rajkumar, Alain Delmer, Rafael Fonseca, Morie A. Gertz, Steven P. Treon, Stephen M. Ansell, Jorge J. Castillo, Prashant Kapoor
Journal: Journal of Clinical Oncology (2024)

Patients with Waldenström macroglobulinemia (WM) have disparate outcomes. Newer therapies have emerged since the development of International Prognostic Scoring System, and
Reply to Andrew J. Vickers’ Letter to the Editor re: Michael Baboudjian, Romain Diamand, Alessandro Uleri, et al. Does Overgrading on Targeted Biopsy of Magnetic Resonance Imaging–visible Lesions in Prostate Cancer Lead to Overtreatment? Eur Urol. In press. https://doi.org/10.1016/j.eururo.2024.02.003
Authors: Alessandro Uleri, Michael Baboudjian, Romain Diamand, Guillaume Ploussard
Journal: European Urology (2024)
Reply to Hein V. Stroomberg, Klaus Brasso, and Andreas Røder’s Letter to the Editor re: Michael Baboudjian, Romain Diamand, Alessandro Uleri, et al. Does Overgrading on Targeted Biopsy of Magnetic Resonance Imaging–visible Lesions in Prostate Cancer Lead to Overtreatment? Eur Urol. In press. https://doi.org/10.1016/j.eururo.2024.02.003
Authors: Alessandro Uleri, Michael Baboudjian, Romain Diamand, Guillaume Ploussard
Journal: European Urology (2024)
Intratumoral antigen signaling traps CD8 <sup>+</sup> T cells to confine exhaustion to the tumor site
Authors: Munetomo Takahashi, Tsz Y. So, Vitalina Chamberlain-Evans, Robert Hughes, Juan Carlos Yam-Puc, Katarzyna Kania, Michelle Ruhle, Tiffeney Mann, Martijn J. Schuijs, Paul Coupland, Dean Naisbitt, Timotheus Y. F. Halim, Paul A. Lyons, Pietro Lio, Rahul Roychoudhuri, Klaus Okkenhaug, David J. Adams, Ken G. C. Smith, Duncan I. Jodrell, Michael A. Chapman, James E. D. Thaventhiran
Journal: Science Immunology (2024)

Immunotherapy advances have been hindered by difficulties in tracking the behaviors of lymphocytes after antigen signaling. Here, we assessed the behavior of T cells active within tumors through the development of the antigen receptor signaling reporter (AgRSR) mouse, fate-mapping lymphocytes responding to antigens at specific times and locations. Contrary to reports describing the ready egress of T cells out of the tumor, we find that intratumoral antigen signaling traps CD8
Heart failure promotes multimorbidity through innate immune memory
Authors: Yukiteru Nakayama, Katsuhito Fujiu, Tsukasa Oshima, Jun Matsuda, Junichi Sugita, Takumi James Matsubara, Yuxiang Liu, Kohsaku Goto, Kunihiro Kani, Ryoko Uchida, Norifumi Takeda, Hiroyuki Morita, Yingda Xiao, Michiko Hayashi, Yujin Maru, Eriko Hasumi, Toshiya Kojima, Soh Ishiguro, Yusuke Kijima, Nozomu Yachie, Satoshi Yamazaki, Ryo Yamamoto, Fujimi Kudo, Mio Nakanishi, Atsushi Iwama, Ryoji Fujiki, Atsushi Kaneda, Osamu Ohara, Ryozo Nagai, Ichiro Manabe, Issei Komuro
Journal: Science Immunology (2024)

Patients with heart failure (HF) often experience repeated acute decompensation and develop comorbidities such as chronic kidney disease and frailty syndrome. Although this suggests pathological interaction among comorbidities, the mechanisms linking them are poorly understood. Here, we identified alterations in hematopoietic stem cells (HSCs) as a critical driver of recurrent HF and associated comorbidities. Bone marrow transplantation from HF-experienced mice resulted in spontaneous cardiac dysfunction and fibrosis in recipient mice, as well as increased vulnerability to kidney and skeletal muscle insults. HF enhanced the capacity of HSCs to generate proinflammatory macrophages. In HF mice, global chromatin accessibility analysis and single-cell RNA-seq showed that transforming growth factor-β (TGF-β) signaling was suppressed in HSCs, which corresponded with repressed sympathetic nervous activity in bone marrow. Transplantation of bone marrow from mice in which TGF-β signaling was inhibited similarly exacerbated cardiac dysfunction. Collectively, these results suggest that cardiac stress modulates the epigenome of HSCs, which in turn alters their capacity to generate cardiac macrophage subpopulations. This change in HSCs may be a common driver of repeated HF events and comorbidity by serving as a key carrier of "stress memory."
<i>NUDCD3</i> deficiency disrupts V(D)J recombination to cause SCID and Omenn syndrome
Authors: Rui Chen, Elena Lukianova, Ina Schim van der Loeff, Jarmila Stremenova Spegarova, Joseph D.P. Willet, Kieran D. James, Edward J. Ryder, Helen Griffin, Hanna IJspeert, Akshada Gajbhiye, Frederic Lamoliatte, Jose L. Marin-Rubio, Lisa Woodbine, Henrique Lemos, David J. Swan, Valeria Pintar, Kamal Sayes, Elias R. Ruiz-Morales, Simon Eastham, David Dixon, Martin Prete, Elena Prigmore, Penny Jeggo, Joan Boyes, Andrew Mellor, Lei Huang, Mirjam van der Burg, Karin R. Engelhardt, Asbjørg Stray-Pedersen, Hans Christian Erichsen, Andrew R. Gennery, Matthias Trost, David J. Adams, Graham Anderson, Anna Lorenc, Gosia Trynka, Sophie Hambleton
Journal: Science Immunology (2024)

Inborn errors of T cell development present a pediatric emergency in which timely curative therapy is informed by molecular diagnosis. In 11 affected patients across four consanguineous kindreds, we detected homozygosity for a single deleterious missense variant in the gene NudC domain–containing 3 ( NUDCD3 ) . Two infants had severe combined immunodeficiency with the complete absence of T and B cells (T - B - SCID), whereas nine showed classical features of Omenn syndrome (OS). Restricted antigen receptor gene usage by residual T lymphocytes suggested impaired V(D)J recombination. Patient cells showed reduced expression of NUDCD3 protein and diminished ability to support RAG-mediated recombination in vitro, which was associated with pathologic sequestration of RAG1 in the nucleoli. Although impaired V(D)J recombination in a mouse model bearing the homologous variant led to milder immunologic abnormalities, NUDCD3 is absolutely required for healthy T and B cell development in humans.
The impact of exposure to tobacco smoke and e‐cigarettes on asthma‐related outcomes: Systematic review informing the EAACI guidelines on environmental science for allergic diseases and asthma
Authors: Ioana Agache, Ignacio Ricci‐Cabello, Carlos Canelo‐Aybar, Isabella Annesi‐Maesano, Lorenzo Cecchi, Benedetta Biagioni, Kian Fan Chung, Gennaro D'Amato, Athanasios Damialis, Stefano del Giacco, Leticia De Las Vecillas, Javier Dominguez‐Ortega, Carmen Galán, Stefanie Gilles, Mattia Giovannini, Stephen Holgate, Mohamed Jeebhay, Kari Nadeau, Nikolaos Papadopoulos, Santiago Quirce, Joaquin Sastre, Claudia Traidl‐Hoffmann, Jolanta Walusiak‐Skorupa, Josefina Salazar, Bernardo Sousa‐Pinto, Miquel Colom, Maria A. Fiol‐deRoque, Lucía Gorreto López, Narges Malih, Laura Moro, Marina García Pardo, Patricia García Pazo, Rocío Zamanillo Campos, L. Saletti‐Cuesta, Mubeccel Akdis, Pablo Alonso‐Coello, Marek Jutel, Cezmi A. Akdis
Journal: Allergy (2024)

To inform the clinical practice guidelines' recommendations developed by the European Academy of Allergy and Clinical Immunology systematic reviews (SR) assessed using GRADE on the impact of environmental tobacco smoke (ETS) and active smoking on the risk of new-onset asthma/recurrent wheezing (RW)/low lung function (LF), and on asthma-related outcomes. Only longitudinal studies were included, almost all on combustion cigarettes, only one assessing e-cigarettes and LF. According to the first SR (67 studies), prenatal ETS increases the risk of RW (moderate certainty evidence) and may increase the risk of new-onset asthma and of low LF (low certainty evidence). Postnatal ETS increases the risk of new-onset asthma and of RW (moderate certainty evidence) and may impact LF (low certainty evidence). Combined in utero and postnatal ETS may increase the risk of new-onset asthma (low certainty evidence) and increases the risk of RW (moderate certainty evidence). According to the second SR (24 studies), ETS increases the risk of severe asthma exacerbations and impairs asthma control and LF (moderate certainty evidence). According to the third SR (25 studies), active smoking increases the risk of severe asthma exacerbations and of suboptimal asthma control (moderate certainty evidence) and may impact asthma-related quality-of-life and LF (low certainty evidence).
Genome-wide association study of hospitalized patients and acute kidney injury
Authors: Edward D. Siew, Jacklyn N. Hellwege, Adriana M. Hung, Bethany C. Birkelo, Andrew J. Vincz, Sharidan K. Parr, Jason Denton, Robert A. Greevy, Cassianne Robinson-Cohen, Hongbo Liu, Katalin Susztak, Michael E. Matheny, Digna R. Velez Edwards
Journal: Kidney International (2024)
Sociodemographic Heterogeneity in the Associations of Social Isolation With Mortality
Authors: Atsushi Nakagomi, Masashige Saito, Toshiyuki Ojima, Takayuki Ueno, Masamichi Hanazato, Katsunori Kondo
Journal: JAMA Network Open (2024)

Importance There are limited data on whether the vulnerabilities and impacts of social isolation vary across populations. Objective To explore the association between social isolation and mortality due to all causes, cardiovascular diseases (CVD), and malignant neoplasms focusing on heterogeneity by sociodemographic factors. Design, Setting, and Participants This cohort study used a moderator-wide approach to examine the heterogeneity in the association of social isolation with all-cause, CVD, and malignant neoplasm mortality using baseline data from the Japan Gerontological Evaluation Study in 2010 and 2011. Eligible participants were adults aged 65 years or older without heart disease, stroke, cancer, or impaired activity of daily living across 12 Japanese municipalities. Follow-up continued until December 31, 2017, identifying 6-year all-cause, cardiovascular disease (CVD), and malignant neoplasm mortality. Logistic regression assessed effect modification by age, gender, education, income, population density, marital status, and employment on mortality associations. Data analysis was performed from September 13, 2023, to March 17, 2024. Exposure Social isolation, determined by a 3-item scale (scores of 2 or 3 indicating isolation) was the primary exposure variable. Main Outcomes and Measures Six-year all-cause, CVD, and malignant neoplasms mortality. Results This study included 37 604 older adults, with a mean (SD) age of 73.5 (5.9) years (21 073 women [56.0%]). A total of 10 094 participants (26.8%) were classified as experiencing social isolation. Social isolation was associated with increased all-cause (odds ratio [OR], 1.20 [95% CI, 1.09-1.32]), CVD (OR, 1.22 [95% CI, 0.98-1.52]), and malignant neoplasm mortality (OR, 1.14 [95% CI, 1.01-1.28]). Stratified analysis showed associations of social isolation with all-cause and malignant neoplasm mortality among people with high income (highest tertile all cause: OR, 1.27 [95% CI, 1.06-1.53]; malignant neoplasm: OR, 1.27 [95% CI, 1.02-1.60]), living in areas with high population density (highest tertile all cause: OR, 1.47 [95% CI, 1.26-1.72]; malignant neoplasm: OR, 1.38 [95% CI, 1.11-1.70]), not married (all cause: OR, 1.33 [95% CI, 1.15-1.53]; malignant neoplasm: OR, 1.25 [95% CI, 1.02-1.52]), and retirees (all cause: OR, 1.27 [95% CI, 1.14-1.43]; malignant neoplasm: OR, 1.27 [95% CI, 1.10-1.48]). Formal testing for effect modification indicated modification by population density and employment for all-cause mortality and by household income and employment for neoplasm mortality. Conclusions and Relevance Social isolation was associated with increased risks of all-cause, CVD, and malignant neoplasm mortality, with associations varying across populations. This study fills an important gap in research on social isolation, emphasizing its varied associations across demographic and socioeconomic groups.
COVID-19 Admission Rates and Changes in Care Quality in US Hospitals
Authors: Giacomo Meille, Pamela L. Owens, Sandra L. Decker, Thomas M. Selden, Melissa A. Miller, Jade K. Perdue-Puli, Erin N. Grace, Craig A. Umscheid, Joel W. Cohen, R. Burciaga Valdez
Journal: JAMA Network Open (2024)

Importance Unprecedented increases in hospital occupancy rates during COVID-19 surges in 2020 caused concern over hospital care quality for patients without COVID-19. Objective To examine changes in hospital nonsurgical care quality for patients without COVID-19 during periods of high and low COVID-19 admissions. Design, Setting, and Participants This cross-sectional study used data from the 2019 and 2020 Agency for Healthcare Research and Quality’s Healthcare Cost and Utilization Project State Inpatient Databases. Data were obtained for all nonfederal, acute care hospitals in 36 states with admissions in 2019 and 2020, and patients without a diagnosis of COVID-19 or pneumonia who were at risk for selected quality indicators were included. The data analysis was performed between January 1, 2023, and March 15, 2024. Exposure Each hospital and week in 2020 was categorized based on the number of COVID-19 admissions per 100 beds: less than 1.0, 1.0 to 4.9, 5.0 to 9.9, 10.0 to 14.9, and 15.0 or greater. Main Outcomes and Measures The main outcomes were rates of adverse outcomes for selected quality indicators, including pressure ulcers and in-hospital mortality for acute myocardial infarction, heart failure, acute stroke, gastrointestinal hemorrhage, hip fracture, and percutaneous coronary intervention. Changes in 2020 compared with 2019 were calculated for each level of the weekly COVID-19 admission rate, adjusting for case-mix and hospital-month fixed effects. Changes during weeks with high COVID-19 admissions (≥15 per 100 beds) were compared with changes during weeks with low COVID-19 admissions (&amp;amp;lt;1 per 100 beds). Results The analysis included 19 111 629 discharges (50.3% female; mean [SD] age, 63.0 [18.0] years) from 3283 hospitals in 36 states. In weeks 18 to 48 of 2020, 35 851 hospital-weeks (36.7%) had low COVID-19 admission rates, and 8094 (8.3%) had high rates. Quality indicators for patients without COVID-19 significantly worsened in 2020 during weeks with high vs low COVID-19 admissions. Pressure ulcer rates increased by 0.09 per 1000 admissions (95% CI, 0.01-0.17 per 1000 admissions; relative change, 24.3%), heart failure mortality increased by 0.40 per 100 admissions (95% CI, 0.18-0.63 per 100 admissions; relative change, 21.1%), hip fracture mortality increased by 0.40 per 100 admissions (95% CI, 0.04-0.77 per 100 admissions; relative change, 29.4%), and a weighted mean of mortality for the selected indicators increased by 0.30 per 100 admissions (95% CI, 0.14-0.45 per 100 admissions; relative change, 10.6%). Conclusions and Relevance In this cross-sectional study, COVID-19 surges were associated with declines in hospital quality, highlighting the importance of identifying and implementing strategies to maintain care quality during periods of high hospital use.
Implementation Strategies to Promote Short-Course Radiation for Bone Metastases
Authors: Erin F. Gillespie, Patricia Mae G. Santos, Michael Curry, Talya Salz, Nirjhar Chakraborty, Michael Caron, Hannah E. Fuchs, Nahomy Ledesma Vicioso, Noah Mathis, Rahul Kumar, Connor O’Brien, Shivani Patel, David M. Guttmann, Jamie S. Ostroff, Andrew L. Salner, Joseph E. Panoff, Alyson F. McIntosh, David G. Pfister, Max Vaynrub, Jonathan T. Yang, Allison Lipitz-Snyderman
Journal: JAMA Network Open (2024)

For patients with nonspine bone metastases, short-course radiotherapy (RT) can reduce patient burden without sacrificing clinical benefit. However, there is great variation in uptake of short-course RT across practice settings.
Sequential Analysis of cfDNA Reveals Clonal Evolution in Patients with Neuroblastoma Receiving <i>ALK</i>-Targeted Therapy
Authors: Charles Bobin, Yasmine Iddir, Charlotte Butterworth, Julien Masliah-Planchon, Alexandra Saint-Charles, Angela Bellini, Jaydutt Bhalshankar, Gaelle Pierron, Valérie Combaret, Valéry Attignon, Nicolas André, Nadège Corradini, Benoit Dumont, Ludovic Mansuy, Camille Khanfar, Sebastien Klein, Claire Briandet, Dominique Plantaz, Frederic Millot, Sandrine Thouvenin, Isabelle Aerts, Lee Aymar Ndounga-Diakou, Salim Laghouati, Samuel Abbou, Nina Jehanno, Hubert Tissot, Shufang Renault, Sylvain Baulande, Virginie Raynal, Laurence Bozec, Ivan Bieche, Olivier Delattre, Pablo Berlanga, Gudrun Schleiermacher
Journal: Clinical Cancer Research (2024)

Abstract Purpose: The study of cell-free DNA (cfDNA) enables sequential analysis of tumor cell–specific genetic alterations in patients with neuroblastoma. Experimental Design: Eighteen patients with relapsing neuroblastoma having received lorlatinib, a third-generation ALK inhibitor, were identified (SACHA national registry and/or in the institution). cfDNA was analyzed at relapse for nine patients and sequentially for five patients (blood/bone marrow plasma) by performing whole-genome sequencing library construction followed by ALK-targeted ddPCR of the hotspot mutations [F1174L, R1275Q, and I1170N; variant allele fraction (VAF) detection limit 0.1%] and whole-exome sequencing (WES) to evaluate disease burden and clonal evolution, following comparison with tumor/germline WES. Results: Overall response rate to lorlatinib was 33% (CI, 13%–59%), with response observed in 6/10 cases without versus 0/8 cases with MYCN amplification (MNA). ALK VAFs correlated with the overall clinical disease status, with a VAF &amp;lt; 0.1% in clinical remission, versus higher VAFs (&amp;gt;30%) at progression. Importantly, sequential ALK ddPCR detected relapse earlier than clinical imaging. cfDNA WES revealed new SNVs, not seen in the primary tumor, in all instances of disease progression after lorlatinib treatment, indicating clonal evolution, including alterations in genes linked to tumor aggressivity (TP53) or novel targets (EGFR). Gene pathway analysis revealed an enrichment for genes targeting cell differentiation in emerging clones, and cell adhesion in persistent clones. Evidence of clonal hematopoiesis could be observed in follow-up samples. Conclusions: We demonstrate the clinical utility of combining ALK cfDNA ddPCR for disease monitoring and cfDNA WES for the study of clonal evolution and resistance mechanisms in patients with neuroblastoma receiving ALK-targeted therapy.
Exercise and Pain Neuroscience Education for Patients With Chronic Pain After Total Knee Arthroplasty
Authors: Jesper B. Larsen, Søren T. Skou, Mogens Laursen, Niels Henrik Bruun, Lars Arendt-Nielsen, Pascal Madeleine
Journal: JAMA Network Open (2024)

Up to 20% of patients develop chronic pain after total knee arthroplasty (TKA), yet there is a scarcity of effective interventions for this population.
A neural circuit architecture for rapid learning in goal-directed navigation
Authors: Chuntao Dan, Brad K. Hulse, Ramya Kappagantula, Vivek Jayaraman, Ann M. Hermundstad
Journal: Neuron (2024)

Anchoring goals to spatial representations enables flexible navigation but is challenging in novel environments when both representations must be acquired simultaneously. We propose a framework for how Drosophila uses internal representations of head direction (HD) to build goal representations upon selective thermal reinforcement. We show that flies use stochastically generated fixations and directed saccades to express heading preferences in an operant visual learning paradigm and that HD neurons are required to modify these preferences based on reinforcement. We used a symmetric visual setting to expose how flies' HD and goal representations co-evolve and how the reliability of these interacting representations impacts behavior. Finally, we describe how rapid learning of new goal headings may rest on a behavioral policy whose parameters are flexible but whose form is genetically encoded in circuit architecture. Such evolutionarily structured architectures, which enable rapidly adaptive behavior driven by internal representations, may be relevant across species.
Targeting Acute Myeloid Leukemia Stem Cells through Perturbation of Mitochondrial Calcium
Authors: Anagha Inguva Sheth, Mark J. Althoff, Hunter Tolison, Krysta Engel, Maria L. Amaya, Anna E. Krug, Tracy N. Young, Mohammad Minhajuddin, Shanshan Pei, Sweta B. Patel, Amanda Winters, Regan Miller, Ian T. Shelton, Jonathan St-Germain, Tianyi Ling, Courtney L. Jones, Brian Raught, Austin E. Gillen, Monica Ransom, Sarah Staggs, Clayton A. Smith, Daniel A. Pollyea, Brett M. Stevens, Craig T. Jordan
Journal: Cancer Discovery (2024)

Acute myeloid leukemia stem cells (LSCs) are uniquely reliant on oxidative phosphorylation (OXPHOS) for survival. Moreover, maintenance of OXPHOS is dependent on BCL-2, creating a therapeutic opportunity to target LSCs using the BCL-2 inhibitor venetoclax. Although venetoclax-based regimens have shown promising clinical activity, the emergence of drug resistance is prevalent. Thus, in the present study, we investigated how mitochondrial properties may influence venetoclax responsiveness. Our data show that utilization of mitochondrial calcium is fundamentally different between drug-responsive and nonresponsive LSCs. By comparison, venetoclax-resistant LSCs demonstrate an active metabolic (i.e., OXPHOS) status with relatively high levels of calcium. Consequently, we tested genetic and pharmacological approaches to target the mitochondrial calcium uniporter. We demonstrate that inhibition of calcium uptake reduces OXPHOS and leads to eradication of venetoclax-resistant LSCs. These findings demonstrate a central role for calcium signaling in LSCs and provide an avenue for clinical management of venetoclax resistance. Significance: We identify increased utilization of mitochondrial calcium as a distinct metabolic requirement of venetoclax-resistant LSCs and demonstrate the potential of targeting mitochondrial calcium uptake as a therapeutic strategy.
Risk of Neonatal Hypoglycemia in Infants of Mothers With Gestational Glucose Intolerance
Authors: Chloe Andrews, Jacqueline Maya, Carolin C.M. Schulte, Sarah Hsu, Tanayott Thaweethai, Kaitlyn E. James, Jose Halperin, Camille E. Powe, Sarbattama Sen
Journal: Diabetes Care (2024)

To examine the relationship between gestational glucose intolerance (GGI) and neonatal hypoglycemia.
Publisher Correction: Pemigatinib in previously treated solid tumors with activating FGFR1–FGFR3 alterations: phase 2 FIGHT-207 basket trial
Authors: Jordi Rodón, Silvia Damian, Muhammad Furqan, Jesús García-Donas, Hiroo Imai, Antoine Italiano, Iben Spanggaard, Makoto Ueno, Tomoya Yokota, Maria Luisa Veronese, Natalia Oliveira, Xin Li, Aidan Gilmartin, Michael Schaffer, Lipika Goyal
Journal: Nature Medicine (2024)
SuperFeat: Quantitative Features Learning from Single-cell RNAseq Data Facilitates Drug Repurposing
Authors: Jianmei Zhong, Junyao Yang, Yinghui Song, Zhihua Zhang, Chunming Wang, Renyang Tong, Chenglong Li, Nanhui Yu, Lianhong Zou, Sulai Liu, Jun Pu, Wei Lin
Journal: Genomics Proteomics & Bioinformatics (2024)

Abstract In this study, we devised a computational framework called Supervised Feature Learning and Scoring (SuperFeat) which enables the training of a machine learning model and evaluates the canonical cellular statuses/features in pathological tissues that underlie the progression of disease. This framework also enables the identification of potential drugs that target the presumed detrimental cellular features. This framework was constructed on the basis of an artificial neural network with the gene expression profiles serving as input nodes. The training data comprised single-cell RNA sequencing datasets that encompassed the specific cell lineage during the developmental progression of cell features. A few models of the canonical cancer-involved cellular statuses/features were tested by such framework. Finally, we illustrated the drug repurposing pipeline, utilizing the training parameters derived from the adverse cellular statuses/features, which yielded successful validation results both in vitro and in vivo. SuperFeat is accessible at https://github.com/weilin-genomics/rSuperFeat.