Walter Eckalbar, PhD
Associate Professor
Medicine
School of Medicine

Grants and Projects

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• Genetic variation impacting the airway smooth muscle in children with asthma, NIH, 2017-2022
• Genetic variation impacting the airway smooth muscle in children with asthma, NIH, 2017-2019

Publications (66)

Top publication keywords:
Molecular Sequence AnnotationCommunicable Disease ControlLizardsScoliosisReptilesEmbryonic DevelopmentEosinophilic EsophagitisWings, AnimalChiropteraEmbryo, NonmammalianSequence Analysis, RNABody PatterningSomitesAlligators and CrocodilesTranscriptome

• Author Correction: Genomic and epigenomic mapping of leptin-responsive neuronal populations involved in body weight regulation.
  Nature metabolism 2024 Inoue F, Eckalbar WL, Wang Y, Murphy KK, Matharu N, Vaisse C, Ahituv N
• Single-cell and spatial multi-omics highlight effects of anti-integrin therapy across cellular compartments in ulcerative colitis.
  Nature communications 2024 Mennillo E, Kim YJ, Lee G, Rusu I, Patel RK, Dorman LC, Flynn E, Li S, Bain JL, Andersen C, Rao A, Tamaki S, Tsui J, Shen A, Lotstein ML, Rahim M, Naser M, Bernard-Vazquez F, Eckalbar W, Cho SJ, Beck …
• Host-Microbe Multiomic Profiling Reveals Age-Dependent COVID-19 Immunopathology.
  medRxiv : the preprint server for health sciences 2024 Van Phan H, Tsitsiklis A, Maguire CP, Haddad EK, Becker PM, Kim-Schulze S, Lee B, Chen J, Hoch A, Pickering H, Van Zalm P, Altman MC, Augustine AD, Calfee CS, Bosinger S, Cairns C, Eckalbar W, Guan L,…
• Features of acute COVID-19 associated with post-acute sequelae of SARS-CoV-2 phenotypes: results from the IMPACC study.
  Nature communications 2024 Ozonoff A, Jayavelu ND, Liu S, Melamed E, Milliren CE, Qi J, Geng LN, McComsey GA, Cairns CB, Baden LR, Schaenman J, Shaw AC, Samaha H, Seyfert-Margolis V, Krammer F, Rosen LB, Steen H, Syphurs C, …
• Single-cell and spatial multi-omics highlight effects of anti-integrin therapy across cellular compartments in ulcerative colitis.
  bioRxiv : the preprint server for biology 2024 Mennillo E, Kim YJ, Lee G, Rusu I, Patel RK, Dorman LC, Flynn E, Li S, Bain JL, Andersen C, Rao A, Tamaki S, Tsui J, Shen A, Lotstein ML, Rahim M, Naser M, Bernard-Vazquez F, Eckalbar W, Cho SJ, Beck …

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• Host-Microbe Multi-omic Profiling Identifies a Unique Program of COVID-19 Inflammatory Dysregulation in Solid Organ Transplant Recipients.
  Research square 2023 Langelier C, Pickering H, Schaenman J, Phan H, Maguire C, Tsitsiklis A, Rouphael N, Higuita N, Atkinson M, Breckenridge S, Fung M, Messer W, IMPACC Network, Salehi-Rad R, Altman M, Becker P, Bosinger …
• Integrated longitudinal multi-omics study identifies immune programs associated with COVID-19 severity and mortality in 1152 hospitalized participants.
  bioRxiv : the preprint server for biology 2023 Gygi JP, Maguire C, Patel RK, Shinde P, Konstorum A, Shannon CP, Xu L, Hoch A, Jayavelu ND, Network I, Haddad EK, Reed EF, Kraft M, McComsey GA, Metcalf J, Ozonoff A, Esserman D, Cairns CB, Rouphael N…
• Comparative proteomic analysis of tail regeneration in the green anole lizard, Anolis carolinensis.
  Natural sciences (Weinheim, Germany) 2023 Xu C, Hutchins ED, Eckalbar W, Pendarvis K, Benson DM, Lake DF, McCarthy FM, Kusumi K
• Distinct pulmonary and systemic effects of dexamethasone in severe COVID-19.
  Research square 2023 Neyton LPA, Patel RK, Sarma A, UCSF COMET Consortium, Willmore A, Haller SC, Kangelaris KN, Eckalbar WL, Erle DJ, Krummel MF, Hendrickson CM, Woodruff PG, Langelier CR, Calfee CS, Fragiadakis GK
• Multi-omic longitudinal study reveals immune correlates of clinical course among hospitalized COVID-19 patients.
  Cell reports. Medicine 2023 Diray-Arce J, Fourati S, Doni Jayavelu N, Patel R, Maguire C, Chang AC, Dandekar R, Qi J, Lee BH, van Zalm P, Schroeder A, Chen E, Konstorum A, Brito A, Gygi JP, Kho A, Chen J, Pawar S, Gonzalez-…
• Patients with abdominal aortic aneurysms have reduced levels of microRNA 122-5p in circulating exosomes.
  PloS one 2023 Lopez JL, Ramirez JL, Phu TA, Duong P, Bouchareychas L, Kuhrau CR, Lin PY, Eckalbar WL, Barczak AJ, Rudolph JD, Maliskova L, Conte MS, Vartanian SM, Raffai RL, Oskowitz AZ
• Genomic characterization and therapeutic utilization of IL-13-responsive sequences in asthma.
  Cell genomics 2022 Koh KD, Bonser LR, Eckalbar WL, Yizhar-Barnea O, Shen J, Zeng X, Hargett KL, Sun DI, Zlock LT, Finkbeiner WE, Ahituv N, Erle DJ
• A functional circuit formed by the autonomic nerves and myofibroblasts controls mammalian alveolar formation for gas exchange.
  Developmental cell 2022 Zhang K, Yao E, Wang SA, Chuang E, Wong J, Minichiello L, Schroeder A, Eckalbar W, Wolters PJ, Chuang PT
• The Type 2 Asthma Mediator IL-13 Inhibits Severe Acute Respiratory Syndrome Coronavirus 2 Infection of Bronchial Epithelium.
  American journal of respiratory cell and molecular biology 2022 Bonser LR, Eckalbar WL, Rodriguez L, Shen J, Koh KD, Ghias K, Zlock LT, Christenson S, Woodruff PG, Finkbeiner WE, Erle DJ
• Bile acid-sensitive tuft cells regulate biliary neutrophil influx.
  Science immunology 2022 O'Leary CE, Sbierski-Kind J, Kotas ME, Wagner JC, Liang HE, Schroeder AW, de Tenorio JC, von Moltke J, Ricardo-Gonzalez RR, Eckalbar WL, Molofsky AB, Schneider C, Locksley RM
• Molecular programs of fibrotic change in aging human lung.
  Nature communications 2021 Lee S, Islam MN, Boostanpour K, Aran D, Jin G, Christenson S, Matthay MA, Eckalbar WL, DePianto DJ, Arron JR, Magee L, Bhattacharya S, Matsumoto R, Kubota M, Farber DL, Bhattacharya J, Wolters PJ, …
• Inhibitor Combinations Reveal Wiring of the Proteostasis Network in Prostate Cancer Cells.
  Journal of medicinal chemistry 2021 Shkedi A, Adkisson M, Schroeder A, Eckalbar WL, Kuo SY, Neckers L, Gestwicki JE
• CCR2 deficiency alters activation of microglia subsets in traumatic brain injury.
  Cell reports 2021 Somebang K, Rudolph J, Imhof I, Li L, Niemi EC, Shigenaga J, Tran H, Gill TM, Lo I, Zabel BA, Schmajuk G, Wipke BT, Gyoneva S, Jandreski L, Craft M, Benedetto G, Plowey ED, Charo I, Campbell J, Ye CJ,…
• Cbl-b deficiency prevents functional but not phenotypic T cell anergy.
  The Journal of experimental medicine 2021 Nguyen TTT, Wang ZE, Shen L, Schroeder A, Eckalbar W, Weiss A
• Flow-Cytometric Analysis and Purification of Airway Epithelial-Cell Subsets.
  American journal of respiratory cell and molecular biology 2021 Bonser LR, Koh KD, Johansson K, Choksi SP, Cheng D, Liu L, Sun DI, Zlock LT, Eckalbar WL, Finkbeiner WE, Erle DJ
• The type 2 asthma mediator IL-13 inhibits SARS-CoV-2 infection of bronchial epithelium.
  bioRxiv : the preprint server for biology 2021 Bonser LR, Eckalbar WL, Rodriguez L, Shen J, Koh KD, Zlock LT, Christenson S, Woodruff PG, Finkbeiner WE, Erle DJ
• Genomic characterization of the adolescent idiopathic scoliosis-associated transcriptome and regulome.
  Human molecular genetics 2021 Makki N, Zhao J, Liu Z, Eckalbar WL, Ushiki A, Khanshour AM, Wu J, Rios J, Gray RS, Wise CA, Ahituv N
• A defect in COPI-mediated transport of STING causes immune dysregulation in COPA syndrome.
  The Journal of experimental medicine 2020 Deng Z, Chong Z, Law CS, Mukai K, Ho FO, Martinu T, Backes BJ, Eckalbar WL, Taguchi T, Shum AK
• Whole-Genome Sequencing Identifies Novel Functional Loci Associated with Lung Function in Puerto Rican Youth.
  American journal of respiratory and critical care medicine 2020 Lee EY, Mak ACY, Hu D, Sajuthi S, White MJ, Keys KL, Eckalbar W, Bonser L, Huntsman S, Urbanek C, Eng C, Jain D, Abecasis G, Kang HM, Germer S, Zody MC, Nickerson DA, Erle D, Ziv E, Rodriguez-Santana …
• On the cross-population generalizability of gene expression prediction models.
  PLoS genetics 2020 Keys KL, Mak ACY, White MJ, Eckalbar WL, Dahl AW, Mefford J, Mikhaylova AV, Contreras MG, Elhawary JR, Eng C, Hu D, Huntsman S, Oh SS, Salazar S, Lenoir MA, Ye JC, Thornton TA, Zaitlen N, Burchard EG,…
• Noncoding SNPs associated with increased GDF15 levels located in a metformin-activated enhancer region upstream of GDF15.
  Pharmacogenomics 2020 Linhares ND, Pereira DA, Conceição IM, Franco GR, Eckalbar WL, Ahituv N, Luizon MR
• Development of allergic airway immunity depends on MARCH1-mediated ubiquitination of MHCII and CD86 in dendritic cells.
  The Journal of Immunology 2020 Carlos A Castellanos, Xin Ren, Hong-Erh Liang, Brian J Laidlaw, Andrea Barczak, Joshua Rudolph, Walter L Eckalbar, Xiaozhu Huang, Jason G Cyster, Richard M Locksley, David J Erle, Satoshi Ishido, …
• Comparative Genomic Characterization of the Multimammate Mouse Mastomys coucha.
  Molecular biology and evolution 2019 Hardin A, Nevonen KA, Eckalbar WL, Carbone L, Ahituv N
• CRISPR-mediated activation of a promoter or enhancer rescues obesity caused by haploinsufficiency.
  2019 Matharu N, Rattanasopha S, Tamura S, Maliskova L, Wang Y, Bernard A, Hardin A, Eckalbar WL, Vaisse C, Ahituv N
• Cell fate analysis in fetal mouse lung reveals distinct pathways for TI and TII cell development.
  American journal of physiology. Lung cellular and molecular physiology 2019 Gonzalez R, Leaffer D, Chapin C, Gillespie AM, Eckalbar W, Dobbs L
• Genome of the Komodo dragon reveals adaptations in the cardiovascular and chemosensory systems of monitor lizards.
  Nature ecology & evolution 2019 Lind AL, Lai YYY, Mostovoy Y, Holloway AK, Iannucci A, Mak ACY, Fondi M, Orlandini V, Eckalbar WL, Milan M, Rovatsos M, Kichigin IG, Makunin AI, Johnson Pokorná M, Altmanová M, Trifonov VA, Schijlen E…
• The epigenetic regulator ATF7ip inhibits Il2 expression, regulating Th17 responses.
  The Journal of experimental medicine 2019 Sin JH, Zuckerman C, Cortez JT, Eckalbar WL, Erle DJ, Anderson MS, Waterfield MR
• Genomic and epigenomic mapping of leptin-responsive neuronal populations involved in body weight regulation.
  Nature metabolism 2019 Inoue F, Eckalbar WL, Wang Y, Murphy KK, Matharu N, Vaisse C, Ahituv N
• Singling out Th2 cells in eosinophilic esophagitis.
  The Journal of clinical investigation 2019 Eckalbar WL, Erle DJ
• Abstract TP130: Transcriptome Analysis of Mononuclear Cell Responses After Ischemic Stroke in Type 2 Diabetic Mice.
  Stroke 2019 Shunsuke Omodaka, Atsushi Kanoke, Christine Hsieh, Walter L Eckalbar, Jialing Liu
• CRISPR-mediated activation of a promoter or enhancer rescues obesity caused by haploinsufficiency.
  Science (New York, N.Y.) 2018 Matharu N, Rattanasopha S, Tamura S, Maliskova L, Wang Y, Bernard A, Hardin A, Eckalbar WL, Vaisse C, Ahituv N
• Integrative approach identifies corticosteroid response variant in diverse populations with asthma.
  The Journal of allergy and clinical immunology 2018 Levin AM, Gui H, Hernandez-Pacheco N, Yang M, Xiao S, Yang JJ, Hochstadt S, Barczak AJ, Eckalbar WL, Rynkowski D, Samedy LA, Kwok PY, Pino-Yanes M, Erle DJ, Lanfear DE, Burchard EG, Williams LK
• Tissue signals imprint ILC2 identity with anticipatory function.
  Nature immunology 2018 Ricardo-Gonzalez RR, Van Dyken SJ, Schneider C, Lee J, Nussbaum JC, Liang HE, Vaka D, Eckalbar WL, Molofsky AB, Erle DJ, Locksley RM
• Whole-Genome Sequencing of Pharmacogenetic Drug Response in Racially Diverse Children with Asthma.
  American journal of respiratory and critical care medicine 2018 Mak ACY, White MJ, Eckalbar WL, Szpiech ZA, Oh SS, Pino-Yanes M, Hu D, Goddard P, Huntsman S, Galanter J, Wu AC, Himes BE, Germer S, Vogel JM, Bunting KL, Eng C, Salazar S, Keys KL, Liberto J, Nuckton…
• Complementarity between term-time forcing and delayed vaccination response in explaining irregular dynamics in childhood diseases.
  Ricerche di Matematica 2018 John C. Eckalbar, Walter L. Eckalbar
• Comparative Genomics Reveals Accelerated Evolution in Conserved Pathways during the Diversification of Anole Lizards.
  Genome biology and evolution 2018 Tollis M, Hutchins ED, Stapley J, Rupp SM, Eckalbar WL, Maayan I, Lasku E, Infante CR, Dennis SR, Robertson JA, May CM, Crusoe MR, Bermingham E, DeNardo DF, Hsieh ST, Kulathinal RJ, McMillan WO, Menke…
• Use antibiotics in cell culture with caution: genome-wide identification of antibiotic-induced changes in gene expression and regulation.
  Scientific reports 2017 Ryu AH, Eckalbar WL, Kreimer A, Yosef N, Ahituv N
• Corrigendum to "Dynamics of an SIR model with vaccination dependent on past prevalence with high order distributed delay" [BioSystems 129 (2015) 50-65].
  Bio Systems 2016 Eckalbar JC, Eckalbar WL
• Genomic Characterization of Metformin Hepatic Response.
  PLoS genetics 2016 Luizon MR, Eckalbar WL, Wang Y, Jones SL, Smith RP, Laurance M, Lin L, Gallins PJ, Etheridge AS, Wright F, Zhou Y, Molony C, Innocenti F, Yee SW, Giacomini KM, Ahituv N
• Differential expression of conserved and novel microRNAs during tail regeneration in the lizard Anolis carolinensis.
  BMC genomics 2016 Hutchins ED, Eckalbar WL, Wolter JM, Mangone M, Kusumi K
• Bat Accelerated Regions Identify a Bat Forelimb Specific Enhancer in the HoxD Locus.
  PLoS genetics 2016 Booker BM, Friedrich T, Mason MK, VanderMeer JE, Zhao J, Eckalbar WL, Logan M, Illing N, Pollard KS, Ahituv N
• Transcriptomic and epigenomic characterization of the developing bat wing.
  Nature genetics 2016 Eckalbar WL, Schlebusch SA, Mason MK, Gill Z, Parker AV, Booker BM, Nishizaki S, Muswamba-Nday C, Terhune E, Nevonen KA, Makki N, Friedrich T, VanderMeer JE, Pollard KS, Carbone L, Wall JD, Illing N, …
• A genome-wide association study identifies four novel susceptibility loci underlying inguinal hernia.
  Nature communications 2015 Jorgenson E, Makki N, Shen L, Chen DC, Tian C, Eckalbar WL, Hinds D, Ahituv N, Avins A
• DYNAMICS IN AN SIR MODEL WHEN VACCINATION DEMAND FOLLOWS PRIOR LEVELS OF DISEASE PREVALENCE.
  Advances in Complex Systems 2015 JOHN C. ECKALBAR, PETE TSOURNOS, WALTER L. ECKALBAR
• Integrated Transcriptomic, Proteomic, and MicroRNA Data Identify Key Regulators of Developmental and Repair Processes During Tail Regeneration in the Green Anole Lizard.
  The FASEB Journal 2015 Elizabeth Hutchins, Walter Eckalbar, Ken Pendarvis, Fiona McCarthy, Douglas Lake, Kenro Kusumi
• A PAX1 enhancer locus is associated with susceptibility to idiopathic scoliosis in females.
  Nature communications 2015 Sharma S, Londono D, Eckalbar WL, Gao X, Zhang D, Mauldin K, Kou I, Takahashi A, Matsumoto M, Kamiya N, Murphy KK, Cornelia R, TSRHC Scoliosis Clinical Group, Japan Scoliosis Clinical Research Group, …
• Dynamics of an SIR model with vaccination dependent on past prevalence with high-order distributed delay.
  Bio Systems 2014 Eckalbar JC, Eckalbar WL
• Genome-wide discovery of drug-dependent human liver regulatory elements.
  PLoS genetics 2014 Smith RP, Eckalbar WL, Morrissey KM, Luizon MR, Hoffmann TJ, Sun X, Jones SL, Force Aldred S, Ramamoorthy A, Desta Z, Liu Y, Skaar TC, Trinklein ND, Giacomini KM, Ahituv N
• Genome-wide distribution of Auts2 binding localizes with active neurodevelopmental genes.
  Translational psychiatry 2014 Oksenberg N, Haliburton GD, Eckalbar WL, Oren I, Nishizaki S, Murphy K, Pollard KS, Birnbaum RY, Ahituv N
• Transcriptomic analysis of tail regeneration in the lizard Anolis carolinensis reveals activation of conserved vertebrate developmental and repair mechanisms.
  PloS one 2014 Hutchins ED, Markov GJ, Eckalbar WL, George RM, King JM, Tokuyama MA, Geiger LA, Emmert N, Ammar MJ, Allen AN, Siniard AL, Corneveaux JJ, Fisher RE, Wade J, DeNardo DF, Rawls JA, Huentelman MJ, Wilson…
• Activation of musculoskeletal development and repair mechanisms in the regenerating lizard tail (344.7).
  The FASEB Journal 2014 Elizabeth Hutchins, Minami Tokuyama, Walter Eckalbar, Rebecca Fisher, Alan Rawls, Jeanne Wilson-Rawls, Kenro Kusumi
• A large-scale view of the evolution of amniote development: insights from somitogenesis in reptiles.
  Current opinion in genetics & development 2013 Kusumi K, May CM, Eckalbar WL
• Genome reannotation of the lizard Anolis carolinensis based on 14 adult and embryonic deep transcriptomes.
  BMC genomics 2013 Eckalbar WL, Hutchins ED, Markov GJ, Allen AN, Corneveaux JJ, Lindblad-Toh K, Di Palma F, Alföldi J, Huentelman MJ, Kusumi K
• Scoliosis and segmentation defects of the vertebrae.
  Wiley interdisciplinary reviews. Developmental biology 2012 Eckalbar WL, Fisher RE, Rawls A, Kusumi K
• Somitogenesis in the anole lizard and alligator reveals evolutionary convergence and divergence in the amniote segmentation clock.
  Developmental biology 2011 Eckalbar WL, Lasku E, Infante CR, Elsey RM, Markov GJ, Allen AN, Corneveaux JJ, Losos JB, DeNardo DF, Huentelman MJ, Wilson-Rawls J, Rawls A, Kusumi K
• Major shifts in the evolution of somitogenesis: The reptile Anolis carolinensis represents a fourth type of segmentation clock among vertebrates.
  Developmental Biology 2011 Walter Eckalbar, Eris Lasku, Carlos Infante, Dale DeNardo, Jonathan Losos, Alan Rawls, Jeanne Wilson-Rawls, Kenro Kusumi
• Dynamics of an epidemic model with quadratic treatment.
  Nonlinear Analysis Real World Applications 2011 John C. Eckalbar, Walter L. Eckalbar
• Developmental gene activation in tail regeneration in the lizard, Anolis carolinensis.
  Developmental Biology 2010 Glenn J. Markov, Rajani George, Nataliya Emmert, Michael Ammar, Walter L. Eckalbar, Juli Wade, Dale DeNardo, Alan Rawls, Jeanne Wilson-Rawls, Kenro Kusumi
• Identification of a divergent notch pathway delta ligand in the segmentation clock of the reptile, Anolis carolinensis.
  Developmental Biology 2010 Walter L. Eckalbar, Carlos Infante, Nataliya Emmert, Jonathan Losos, Alan Rawls, Jeanne Wilson-Rawls, Kenro Kusumi
• Genetic Regulation of Somite and Early Spinal Patterning.
  The Genetics and Development of Scoliosis 2010 Kenro Kusumi, Walter Eckalbar, Olivier Pourquié
• How many genes are part of the oscillatory network regulating somitogenesis? Developmental analysis and mathematical modeling of genes identified in functional genomic screens.
  Developmental Biology 2009 Walter Eckalbar, Will Sewell, Allanceson Smith, Eric Huynh, Joshua Gibson, Jeanne Wilson-Rawls, Michael Caplan, Kenro Kusumi