Publications

A selection of recent and significant publications can be viewed below.

View Dr. Hennighausen's publications on Google Scholar.

View Dr. Hennighausen's publications on PubMed.

Select Publications

Cell-specific and shared regulatory elements control a multigene locus active in mammary and salivary glands.

Lee HK, Willi M, Liu C, Hennighausen L.

Nat Commun (2023 Aug 17) 14:4992. Abstract/Full Text

mRNA vaccination in octogenarians 15 and 20 months after recovery from COVID-19 elicits robust immune and antibody responses that include Omicron.

Lee HK, Knabl L, Moliva JI, Knabl L Sr, Werner AP, Boyoglu-Barnum S, Kapferer S, Pateter B, Walter M, Sullivan NJ, Furth PA, Hennighausen L.

Cell Rep (2022 Apr 12) 39:110680. Abstract/Full Text

Targeting fidelity of adenine and cytosine base editors in mouse embryos.

Lee HK, Willi M, Miller SM, Kim S, Liu C, Liu DR, Hennighausen L.

Nat Commun (2018 Nov 15) 9:4804. Abstract/Full Text

CRISPR/Cas9 targeting events cause complex deletions and insertions at 17 sites in the mouse genome.

Shin HY, Wang C, Lee HK, Yoo KH, Zeng X, Kuhns T, Yang CM, Mohr T, Liu C, Hennighausen L.

Nat Commun (2017 May 31) 8:15464. Abstract/Full Text

Hierarchy within the mammary STAT5-driven Wap super-enhancer.

Shin HY, Willi M, HyunYoo K, Zeng X, Wang C, Metser G, Hennighausen L.

Nat Genet (2016 Aug) 48:904-911. Abstract/Full Text

Additional Publications

Sexually dimorphic renal expression of Klotho is directed by a kidney-specific distal enhancer responsive to HNF1b.

Jankowski J, Lee HK, Liu C, Wilflingseder J, Hennighausen L.

Res Sq (2024 Apr 22) Abstract/Full Text

Machine Learning to Identify Critical Biomarker Profiles in New SARS-CoV-2 Variants.

Schatz C, Knabl L, Lee HK, Seeboeck R, von Laer D, Lafon E, Borena W, Mangge H, Prüller F, Qerimi A, Wilflingseder D, Posch W, Haybaeck J.

Microorganisms (2024 Apr 15) 12. Abstract/Full Text

Sexually dimorphic renal expression of Klotho is directed by a kidney-specific distal enhancer responsive to HNF1b.

Jankowski J, Lee HK, Liu C, Wilflingseder J, Hennighausen L.

bioRxiv (2024 Mar 4) Abstract/Full Text

Variant- and Vaccination-Specific Alternative Splicing Profiles in SARS-CoV-2 Infections.

Lee SG, Furth PA, Hennighausen L, Lee HK.

bioRxiv (2023 Nov 27) Abstract/Full Text

Network medicine-based epistasis detection in complex diseases: ready for quantum computing.

Hoffmann M, Poschenrieder JM, Incudini M, Baier S, Fitz A, Maier A, Hartung M, Hoffmann C, Trummer N, Adamowicz K, Picciani M, Scheibling E, Harl MV, Lesch I, Frey H, Kayser S, Wissenberg P, Schwartz L, Hafner L, Acharya A, Hackl L, Grabert G, Lee SG, Cho G, Cloward M, Jankowski J, Lee HK, Tsoy O, Wenke N, Pedersen AG, Bønnelykke K, Mandarino A, Melograna F, Schulz L, Climente-González H, Wilhelm M, Iapichino L, Wienbrandt L, Ellinghaus D, Van Steen K, Grossi M, Furth PA, Hennighausen L, Di Pierro A, Baumbach J, Kacprowski T, List M, Blumenthal DB.

medRxiv (2023 Nov 9) Abstract/Full Text

Blood transcriptomics analysis offers insights into variant-specific immune response to SARS-CoV-2.

Hoffmann M, Willruth LL, Dietrich A, Lee HK, Knabl L, Trummer N, Baumbach J, Furth PA, Hennighausen L, List M.

bioRxiv (2023 Nov 6) Abstract/Full Text

circRNA-sponging: a pipeline for extensive analysis of circRNA expression and their role in miRNA sponging.

Hoffmann M, Schwartz L, Ciora OA, Trummer N, Willruth LL, Jankowski J, Lee HK, Baumbach J, Furth PA, Hennighausen L, List M.

Bioinform Adv (2023) 3:vbad093. Abstract/Full Text

Analysis of immune responses in patients with CLL after heterologous COVID-19 vaccination.

Lee HK, Hoechstetter MA, Buchner M, Pham TT, Huh JW, Müller K, Zange S, von Buttlar H, Girl P, Wölfel R, Brandmeier L, Pfeuffer L, Furth PA, Wendtner CM, Hennighausen L.

Blood Adv (2023 May 23) 7:2214-2227. Abstract/Full Text

TF-Prioritizer: a Java pipeline to prioritize condition-specific transcription factors.

Hoffmann M, Trummer N, Schwartz L, Jankowski J, Lee HK, Willruth LL, Lazareva O, Yuan K, Baumgarten N, Schmidt F, Baumbach J, Schulz MH, Blumenthal DB, Hennighausen L, List M.

Gigascience (2022 Dec 28) 12. Abstract/Full Text

Limited cross-variant immune response from SARS-CoV-2 Omicron BA.2 in naïve but not previously infected outpatients.

Lee HK, Knabl L, Walter M, Furth PA, Hennighausen L.

iScience (2022 Nov 18) 25:105369. Abstract/Full Text

Immune transcriptome and antibody response in adult-onset Still's disease with mild flare following administration of mRNA vaccine BNT162b2.

Knabl L, Lee HK, Walter M, Furth PA, Hennighausen L.

Rheumatology (Oxford) (2022 Oct 6) 61:e305-e307. Abstract/Full Text

Heterologous ChAdOx1-BNT162b2 vaccination in Korean cohort induces robust immune and antibody responses that includes Omicron.

Lee HK, Go J, Sung H, Kim SW, Walter M, Knabl L, Furth PA, Hennighausen L, Huh JW.

iScience (2022 Jun 17) 25:104473. Abstract/Full Text

Prior Vaccination Exceeds Prior Infection in Eliciting Innate and Humoral Immune Responses in Omicron Infected Outpatients.

Lee HK, Knabl L, Walter M, Knabl L Sr, Dai Y, Füßl M, Caf Y, Jeller C, Knabl P, Obermoser M, Baurecht C, Kaiser N, Zabernigg A, Wurdinger GM, Furth PA, Hennighausen L.

Front Immunol (2022) 13:916686. Abstract/Full Text

Immune transcriptome analysis of COVID-19 patients infected with SARS-CoV-2 variants carrying the E484K escape mutation identifies a distinct gene module.

Lee HK, Knabl L, Knabl L Sr, Wieser M, Mur A, Zabernigg A, Schumacher J, Kapferer S, Kaiser N, Furth PA, Hennighausen L.

Sci Rep (2022 Feb 18) 12:2784. Abstract/Full Text

BNT162b2 vaccination enhances interferon-JAK-STAT-regulated antiviral programs in COVID-19 patients infected with the SARS-CoV-2 Beta variant.

Knabl L, Lee HK, Wieser M, Mur A, Zabernigg A, Knabl L Sr, Rauch S, Bock M, Schumacher J, Kaiser N, Furth PA, Hennighausen L.

Commun Med (Lond) (2022) 2. Abstract/Full Text

Robust immune response to the BNT162b mRNA vaccine in an elderly population vaccinated 15 months after recovery from COVID-19.

Lee HK, Knabl L, Knabl L Sr, Kapferer S, Pateter B, Walter M, Furth PA, Hennighausen L.

medRxiv (2021 Sep 12) Abstract/Full Text

JAK inhibitors dampen activation of interferon-activated transcriptomes and the SARS-CoV-2 receptor ACE2 in human renal proximal tubules.

Jankowski J, Lee HK, Wilflingseder J, Hennighausen L.

iScience (2021 Aug 20) 24:102928. Abstract/Full Text

JAK inhibitors dampen activation of interferon-stimulated transcription of ACE2 isoforms in human airway epithelial cells.

Lee HK, Jung O, Hennighausen L.

Commun Biol (2021 Jun 2) 4:654. Abstract/Full Text

Redundant and non-redundant cytokine-activated enhancers control Csn1s2b expression in the lactating mouse mammary gland.

Lee HK, Willi M, Kuhns T, Liu C, Hennighausen L.

Nat Commun (2021 Apr 14) 12:2239. Abstract/Full Text

Immune transcriptomes of highly exposed SARS-CoV-2 asymptomatic seropositive versus seronegative individuals from the Ischgl community.

Lee HK, Knabl L, Pipperger L, Volland A, Furth PA, Kang K, Smith HE, Knabl L Sr, Bellmann R, Bernhard C, Kaiser N, Gänzer H, Ströhle M, Walser A, von Laer D, Hennighausen L.

Sci Rep (2021 Feb 19) 11:4243. Abstract/Full Text

Enhancer and super-enhancer dynamics in repair after ischemic acute kidney injury.

Wilflingseder J, Willi M, Lee HK, Olauson H, Jankowski J, Ichimura T, Erben R, Valerius MT, Hennighausen L, Bonventre JV.

Nat Commun (2020 Jul 7) 11:3383. Abstract/Full Text

Cytosine base editor 4 but not adenine base editor generates off-target mutations in mouse embryos.

Lee HK, Smith HE, Liu C, Willi M, Hennighausen L.

Commun Biol (2020 Jan 9) 3:19. Abstract/Full Text

Progressing super-enhancer landscape during mammary differentiation controls tissue-specific gene regulation.

Lee HK, Willi M, Shin HY, Liu C, Hennighausen L.

Nucleic Acids Res (2018 Nov 16) 46:10796-10809. Abstract/Full Text

Octopus-toolkit: a workflow to automate mining of public epigenomic and transcriptomic next-generation sequencing data.

Kim T, Seo HD, Hennighausen L, Lee D, Kang K.

Nucleic Acids Res (2018 May 18) 46:e53. Abstract/Full Text

Subset- and tissue-defined STAT5 thresholds control homeostasis and function of innate lymphoid cells.

Villarino AV, Sciumè G, Davis FP, Iwata S, Zitti B, Robinson GW, Hennighausen L, Kanno Y, O'Shea JJ.

J Exp Med (2017 Oct 2) 214:2999-3014. Abstract/Full Text

Facultative CTCF sites moderate mammary super-enhancer activity and regulate juxtaposed gene in non-mammary cells.

Willi M, Yoo KH, Reinisch F, Kuhns TM, Lee HK, Wang C, Hennighausen L.

Nat Commun (2017 Jul 17) 8:16069. Abstract/Full Text

Functional assessment of CTCF sites at cytokine-sensing mammary enhancers using CRISPR/Cas9 gene editing in mice.

Lee HK, Willi M, Wang C, Yang CM, Smith HE, Liu C, Hennighausen L.

Nucleic Acids Res (2017 May 5) 45:4606-4618. Abstract/Full Text

Lineage-Specific and Non-specific Cytokine-Sensing Genes Respond Differentially to the Master Regulator STAT5.

Zeng X, Willi M, Shin HY, Hennighausen L, Wang C.

Cell Rep (2016 Dec 20) 17:3333-3346. Abstract/Full Text

Differential cytokine sensitivities of STAT5-dependent enhancers rely on Stat5 autoregulation.

Willi M, Yoo KH, Wang C, Trajanoski Z, Hennighausen L.

Nucleic Acids Res (2016 Dec 1) 44:10277-10291. Abstract/Full Text

Histone Demethylase KDM6A Controls the Mammary Luminal Lineage through Enzyme-Independent Mechanisms.

Yoo KH, Oh S, Kang K, Wang C, Robinson GW, Ge K, Hennighausen L.

Mol Cell Biol (2016 Aug 15) 36:2108-20. Abstract/Full Text

Signal transducer and activator of transcription 5 (STAT5) paralog dose governs T cell effector and regulatory functions.

Villarino A, Laurence A, Robinson GW, Bonelli M, Dema B, Afzali B, Shih HY, Sun HW, Brooks SR, Hennighausen L, Kanno Y, O'Shea JJ.

Elife (2016 Mar 21) 5. Abstract/Full Text

The methyltransferase EZH2 is not required for mammary cancer development, although high EZH2 and low H3K27me3 correlate with poor prognosis of ER-positive breast cancers.

Bae WK, Yoo KH, Lee JS, Kim Y, Chung IJ, Park MH, Yoon JH, Furth PA, Hennighausen L.

Mol Carcinog (2015 Oct) 54:1172-80. Abstract/Full Text

The methyltransferases enhancer of zeste homolog (EZH) 1 and EZH2 control hepatocyte homeostasis and regeneration.

Bae WK, Kang K, Yu JH, Yoo KH, Factor VM, Kaji K, Matter M, Thorgeirsson S, Hennighausen L.

FASEB J (2015 May) 29:1653-62. Abstract/Full Text

The STAT5-regulated miR-193b locus restrains mammary stem and progenitor cell activity and alveolar differentiation.

Yoo KH, Kang K, Feuermann Y, Jang SJ, Robinson GW, Hennighausen L.

Dev Biol (2014 Nov 15) 395:245-54. Abstract/Full Text

Coregulation of genetic programs by the transcription factors NFIB and STAT5.

Robinson GW, Kang K, Yoo KH, Tang Y, Zhu BM, Yamaji D, Colditz V, Jang SJ, Gronostajski RM, Hennighausen L.

Mol Endocrinol (2014 May) 28:758-67. Abstract/Full Text

Mammary-specific gene activation is defined by progressive recruitment of STAT5 during pregnancy and the establishment of H3K4me3 marks.

Kang K, Yamaji D, Yoo KH, Robinson GW, Hennighausen L.

Mol Cell Biol (2014 Feb) 34:464-73. Abstract/Full Text

MiR-21 is under control of STAT5 but is dispensable for mammary development and lactation.

Feuermann Y, Kang K, Shamay A, Robinson GW, Hennighausen L.

PLoS One (2014) 9:e85123. Abstract/Full Text

Canonical and non-canonical roles of the histone methyltransferase EZH2 in mammary development and cancer.

Bae WK, Hennighausen L.

Mol Cell Endocrinol (2014 Jan 25) 382:593-597. Abstract/Full Text

MiR-193b and miR-365-1 are not required for the development and function of brown fat in the mouse.

Feuermann Y, Kang K, Gavrilova O, Haetscher N, Jang SJ, Yoo KH, Jiang C, Gonzalez FJ, Robinson GW, Hennighausen L.

RNA Biol (2013 Dec) 10:1807-14. Abstract/Full Text

Comprehensive meta-analysis of Signal Transducers and Activators of Transcription (STAT) genomic binding patterns discerns cell-specific cis-regulatory modules.

Kang K, Robinson GW, Hennighausen L.

BMC Genomics (2013 Jan 16) 14:4. Abstract/Full Text

The liver-specific tumor suppressor STAT5 controls expression of the reactive oxygen species-generating enzyme NOX4 and the proapoptotic proteins PUMA and BIM in mice.

Yu JH, Zhu BM, Riedlinger G, Kang K, Hennighausen L.

Hepatology (2012 Dec) 56:2375-86. Abstract/Full Text