<h1 id="rosen-bioengineering-center"><a href="./">Rosen Bioengineering
Center</a></h1>
<h2 id="rosen-center">(Rosen Center)</h2>
<p><a href="https://www.rosen.caltech.edu/"
class="uri">https://www.rosen.caltech.edu/</a></p>
<h3 id="combined-from-caltechauthors">combined from <a
href="https://authors.library.caltech.edu">CaltechAUTHORS</a></h3>
<ul>
<li>Shadkhoo, Shahriar and Thomson, Matt (2024) <a
href="https://authors.library.caltech.edu/records/2ccwa-pwz14">Theoretical
limits of energy extraction in active fluids</a>; Physical Review
Research; Vol. 6; No. 2; 23195; <a
href="https://doi.org/10.1103/physrevresearch.6.023195">10.1103/physrevresearch.6.023195</a></li>
<li>Flynn, Michael James; Mayfield, Acacia M.; et al. (2024) <a
href="https://authors.library.caltech.edu/records/8b5yj-sjn05">Synthetic
dosage-compensating miRNA circuits allow precision gene therapy for Rett
syndrome</a>; bioRxiv; 2024.03.13.584179; PMCID PMC10980028; <a
href="https://doi.org/10.1101/2024.03.13.584179">10.1101/2024.03.13.584179</a></li>
<li>Flamholz, Avi I.; Goyal, Akshit; et al. (2024) <a
href="https://authors.library.caltech.edu/records/p94bf-gjw45">The
proteome is a terminal electron acceptor</a>; PMCID PMC10862836; <a
href="https://doi.org/10.1101/2024.01.31.578293">10.1101/2024.01.31.578293</a></li>
<li>Zhou, Tingtao; Wan, Xuan; et al. (2024) <a
href="https://authors.library.caltech.edu/records/ch9jq-hc145">AI-aided
geometric design of anti-infection catheters</a>; Science Advances; Vol.
10; No. 1; eadj1741; PMCID PMC10776022; <a
href="https://doi.org/10.1126/sciadv.adj1741">10.1126/sciadv.adj1741</a></li>
<li>Qin, Zi-Yang; Gao, Shilong; et al. (2023) <a
href="https://authors.library.caltech.edu/records/dt31x-1gg04">Biocatalytic
Construction of Chiral Pyrrolidines and Indolines via Intramolecular
C(sp³)–H Amination</a>; ACS Central Science; Vol. 9; No. 12; 2333-2338;
PMCID PMC10755850; <a
href="https://doi.org/10.1021/acscentsci.3c00516">10.1021/acscentsci.3c00516</a></li>
<li>Ling, Bill; Ko, Jeong Hoon; et al. (2023) <a
href="https://authors.library.caltech.edu/records/7w289-s1c34">Gas
Vesicle–Blood Interactions Enhance Ultrasound Imaging Contrast</a>; Nano
Letters; Vol. 23; No. 33; 10748-10757; PMCID PMC10722532; <a
href="https://doi.org/10.1021/acs.nanolett.3c02780">10.1021/acs.nanolett.3c02780</a></li>
<li>Jin, Zhiyang; Lakshmanan, Anupama; et al. (2023) <a
href="https://authors.library.caltech.edu/records/qnxrm-ncs15">Ultrasonic
reporters of calcium for deep tissue imaging of cellular signals</a>;
PMCID PMC10659314; <a
href="https://doi.org/10.1101/2023.11.09.566364">10.1101/2023.11.09.566364</a></li>
<li>Wu-Woods, Natalie J.; Barlow, Jacob T.; et al. (2023) <a
href="https://authors.library.caltech.edu/records/rjrx5-9bm15">Microbial-enrichment
method enables high-throughput metagenomic characterization from
host-rich samples</a>; Nature Methods; <a
href="https://doi.org/10.1038/s41592-023-02025-4">10.1038/s41592-023-02025-4</a></li>
<li>Huang, Shan; Wang, Kaihang; et al. (2023) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20230328-708572000.64">Genome
manipulation by guide-directed Argonaute cleavage</a>; Nucleic Acids
Research; Vol. 51; No. 8; 4078-4085; PMCID PMC10164581; <a
href="https://doi.org/10.1093/nar/gkad188">10.1093/nar/gkad188</a></li>
<li>Shirzaei Sani, Ehsan; Xu, Changhao; et al. (2023) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20230328-625234000.1">A
stretchable wireless wearable bioelectronic system for multiplexed
monitoring and combination treatment of infected chronic wounds</a>;
Science Advances; Vol. 9; No. 12; eadf7388; PMCID PMC10038347; <a
href="https://doi.org/10.1126/sciadv.adf7388">10.1126/sciadv.adf7388</a></li>
<li>Haloi, Nandan; Huang, Shan; et al. (2023) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20230316-182493000.35">Interactive
computational and experimental approaches improve the sensitivity of
periplasmic binding protein-based nicotine biosensors for measurements
in biofluids</a>; <a
href="https://doi.org/10.1101/2023.01.16.524298">10.1101/2023.01.16.524298</a></li>
<li>Abdel-Haq, Reem; Schlachetzki, Johannes C. M.; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20221202-906989500.8">A
prebiotic diet modulates microglial states and motor deficits in
α-synuclein overexpressing mice</a>; eLife; Vol. 11; Art. No. e81453;
PMCID PMC9668333; <a
href="https://doi.org/10.7554/elife.81453">10.7554/elife.81453</a></li>
<li>Abdel-Haq, Reem; Schlachetzki, Johannes C. M.; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20220706-965670000">A
prebiotic diet modulates microglial states and motor deficits in
α-synuclein overexpressing mice</a>; <a
href="https://doi.org/10.1101/2022.06.27.497828">10.1101/2022.06.27.497828</a></li>
<li>Eze, Ngozi A. and Milam, Valeria T. (2022) <a
href="https://authors.library.caltech.edu/records/r12zt-vn206">Quantitative
Analysis of In Situ Locked Nucleic Acid and DNA Competitive Displacement
Events on Microspheres</a>; Langmuir; Vol. 38; No. 22; 6871-6881; <a
href="https://doi.org/10.1021/acs.langmuir.2c00220">10.1021/acs.langmuir.2c00220</a></li>
<li>Wang, Canran; Shirzaei Sani, Ehsan; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20220113-922790233">Wearable
Bioelectronics for Chronic Wound Management</a>; Advanced Functional
Materials; Vol. 32; No. 17; 2111022; PMCID PMC9518812; <a
href="https://doi.org/10.1002/adfm.202111022">10.1002/adfm.202111022</a></li>
<li>Greenwald, Noah F.; Miller, Geneva; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210303-070232817">Whole-cell
segmentation of tissue images with human-level performance using
large-scale data annotation and deep learning</a>; Nature Biotechnology;
Vol. 40; No. 4; 555-565; PMCID PMC9010346; <a
href="https://doi.org/10.1038/s41587-021-01094-0">10.1038/s41587-021-01094-0</a></li>
<li>Winnett, Alexander Viloria; Porter, Michael K.; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20220307-188444000">Morning
SARS-CoV-2 testing yields better detection of infection due to higher
viral loads in saliva and nasal swabs upon waking</a>; <a
href="https://doi.org/10.1101/2022.03.02.22271724">10.1101/2022.03.02.22271724</a></li>
<li>Shen, Cheng; Zhou, Haowen; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20220304-60849000">Non-interferometric
and non-iterative complex wave-field reconstruction based on
Kramers-Kronig relations</a>; <a
href="https://doi.org/10.1117/12.2608280">10.1117/12.2608280</a></li>
<li>Shen, Cheng; Lamba, Adiyant; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20220215-496417800">Stain-free
detection of embryo polarization using deep learning</a>; Scientific
Reports; Vol. 12; Art. No. 2404; <a
href="https://doi.org/10.1038/s41598-022-05990-6">10.1038/s41598-022-05990-6</a></li>
<li>Savela, Emily S.; Winnett, Alexander Viloria; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210407-080559241">Quantitative
SARS-CoV-2 Viral-Load Curves in Paired Saliva Samples and Nasal Swabs
Inform Appropriate Respiratory Sampling Site and Analytical Test
Sensitivity Required for Earliest Viral Detection</a>; Journal of
Clinical Microbiology; Vol. 60; No. 2; Art. No. e01785-21; PMCID
PMC8849374; <a
href="https://doi.org/10.1128/JCM.01785-21">10.1128/JCM.01785-21</a></li>
<li>Ramachandran, Karthik; Shao, Zixuan; et al. (2022) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20211202-230941847">Tungsten
disulfide nanotubes enhance flow-induced crystallization and
radio-opacity of polylactide without adversely affecting in vitro
toxicity</a>; Acta Biomaterialia; Vol. 138; 313-326; PMCID PMC9505057;
<a
href="https://doi.org/10.1016/j.actbio.2021.11.005">10.1016/j.actbio.2021.11.005</a></li>
<li>Huang, Shan; Wang, Kaihang; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20211122-174116390">Genome
manipulation by guide-directed Argonaute cleavage</a>; <a
href="https://doi.org/10.1101/2021.11.17.469050">10.1101/2021.11.17.469050</a></li>
<li>Barlow, Jacob T.; Leite, Gabriela; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20211110-202208524">Quantitative
sequencing clarifies the role of disruptor taxa, oral microbiota, and
strict anaerobes in the human small-intestine microbiome</a>;
Microbiome; Vol. 9; Art. No. 214; PMCID PMC8561862; <a
href="https://doi.org/10.1186/s40168-021-01162-2">10.1186/s40168-021-01162-2</a></li>
<li>Kim, Gunho; Portela, Carlos M.; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20211102-204833333">Poroelastic
microlattices for underwater wave focusing</a>; Extreme Mechanics
Letters; Vol. 49; Art. No. 101499; <a
href="https://doi.org/10.1016/j.eml.2021.101499">10.1016/j.eml.2021.101499</a></li>
<li>Belliveau, Nathan M.; Chure, Griffin; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20201021-080615473">Fundamental
limits on the rate of bacterial growth and their influence on proteomic
composition</a>; Cell Systems; Vol. 12; No. 9; 924-944; PMCID
PMC8460600; <a
href="https://doi.org/10.1016/j.cels.2021.06.002">10.1016/j.cels.2021.06.002</a></li>
<li>Qu, Zijie; Schildknecht, Dominik; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20201110-143708446">Persistent
fluid flows defined by active matter boundaries</a>; Communications
Physics; Vol. 4; Art. No. 198; <a
href="https://doi.org/10.1038/s42005-021-00703-3">10.1038/s42005-021-00703-3</a></li>
<li>Tsypin, Lev M. and Newman, Dianne K. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210607-115053770">Nitrate
Reduction Stimulates and Is Stimulated by Phenazine-1-Carboxylic Acid
Oxidation by Citrobacter portucalensis MBL</a>; mBio; Vol. 12; No. 4;
Art. No. e02265-21; <a
href="https://doi.org/10.1128/mBio.02265-21">10.1128/mBio.02265-21</a></li>
<li>Shen, Cheng; Liang, Mingshu; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200624-100741522">Non-iterative
complex wave-field reconstruction based on Kramers–Kronig relations</a>;
Photonics Research; Vol. 9; No. 6; 1003-1012; <a
href="https://doi.org/10.1364/PRJ.419886">10.1364/PRJ.419886</a></li>
<li>Hochrein, Lisa M.; Li, Heyun; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210503-115702708">High-Performance
Allosteric Conditional Guide RNAs for Mammalian Cell-Selective
Regulation of CRISPR/Cas</a>; ACS Synthetic Biology; Vol. 10; No. 5;
964-971; <a
href="https://doi.org/10.1021/acssynbio.1c00037">10.1021/acssynbio.1c00037</a></li>
<li>Buss, Marjorie T.; Ramesh, Pradeep; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210315-102208370">Spatial
Control of Probiotic Bacteria in the Gastrointestinal Tract Assisted by
Magnetic Particles</a>; Advanced Materials; Vol. 33; No. 17; Art.
No. 2007473; <a
href="https://doi.org/10.1002/adma.202007473">10.1002/adma.202007473</a></li>
<li>Laccetti, Benjamin and Kornfield, Julia (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20201208-105038922">Ballistic
delivery of compounds to inner layers of the cornea is limited by tough
mechanical properties of stromal tissue</a>; Journal of the Mechanical
Behavior of Biomedical Materials; Vol. 115; Art. No. 104246; <a
href="https://doi.org/10.1016/j.jmbbm.2020.104246">10.1016/j.jmbbm.2020.104246</a></li>
<li>Zheng, Guoan; Shen, Cheng; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210210-120447617">Concept,
implementations and applications of Fourier ptychography</a>; Nature
Reviews Physics; Vol. 3; No. 3; 207-223; <a
href="https://doi.org/10.1038/s42254-021-00280-y">10.1038/s42254-021-00280-y</a></li>
<li>Qu, Zijie; Jiang, Jialong; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210217-132137942">Programming
Boundary Deformation Patterns in Active Networks</a>; <a
href="https://doi.org/10.48550/arXiv.2101.08464">10.48550/arXiv.2101.08464</a></li>
<li>Morrison, Muir; Razo-Mejia, Manuel; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200615-130249775">Reconciling
kinetic and thermodynamic models of bacterial transcription</a>; PLOS
Computational Biology; Vol. 17; No. 1; Art. No. e1008572; PMCID
PMC7845990; <a
href="https://doi.org/10.1371/journal.pcbi.1008572">10.1371/journal.pcbi.1008572</a></li>
<li>Trivedi, Vikas; Madaan, Sara; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210111-160848952">Imaging
the Beating Heart with Macroscopic Phase Stamping</a>; <a
href="https://doi.org/10.48550/arXiv.2011.01688">10.48550/arXiv.2011.01688</a></li>
<li>Bannon, Dylan; Moen, Erick; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20190916-101510993">DeepCell
Kiosk: scaling deep learning–enabled cellular image analysis with
Kubernetes</a>; Nature Methods; Vol. 18; No. 1; 43-45; <a
href="https://doi.org/10.1038/s41592-020-01023-0">10.1038/s41592-020-01023-0</a></li>
<li>Xu, Jian; Jahromi, Ali K.; et al. (2021) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20210105-133437784">Diffusing
wave spectroscopy: A unified treatment on temporal sampling and speckle
ensemble methods</a>; APL Photonics; Vol. 6; No. 1; Art. No. 016105; <a
href="https://doi.org/10.1063/5.0034576">10.1063/5.0034576</a></li>
<li>Winnett, Alexander; Cooper, Matthew M.; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20201211-113537700">SARS-CoV-2
Viral Load in Saliva Rises Gradually and to Moderate Levels in Some
Humans</a>; PMCID PMC7743094; <a
href="https://doi.org/10.1101/2020.12.09.20239467">10.1101/2020.12.09.20239467</a></li>
<li>Tsypin, Lev M. and Newman, Dianne K. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20201124-104632686">Bidirectional
redox cycling of phenazine-1-carboxylic acid by Citrobacter
portucalensis MBL drives increased nitrate reduction</a>; <a
href="https://doi.org/10.1101/2020.11.23.395335">10.1101/2020.11.23.395335</a></li>
<li>Wu, Zhiguang; Chen, Ye; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200706-101709396">Medical
micro/nanorobots in complex media</a>; Chemical Society Reviews; Vol.
49; No. 22; 8088-8112; <a
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<li>Merk, Liana N.; Shur, Andrey S.; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20201111-100159834">Engineering
Logical Inflammation Sensing Circuit for Modulating Gut Conditions</a>;
<a
href="https://doi.org/10.1101/2020.11.10.377085">10.1101/2020.11.10.377085</a></li>
<li>Cua, Michelle; Martin, Daniel; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200715-152735840">Method
to Determine Syringe Silicone Oil Layer Heterogeneity and Investigation
of its Impact on Product Particle Counts</a>; Journal of Pharmaceutical
Sciences; Vol. 109; No. 11; 3292-3299; PMCID PMC7572663; <a
href="https://doi.org/10.1016/j.xphs.2020.07.012">10.1016/j.xphs.2020.07.012</a></li>
<li>Rabut, Claire; Yoo, Sangjin; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20201019-101559925">Ultrasound
Technologies for Imaging and Modulating Neural Activity</a>; Neuron;
Vol. 108; No. 1; 93-110; <a
href="https://doi.org/10.1016/j.neuron.2020.09.003">10.1016/j.neuron.2020.09.003</a></li>
<li>Saunders, Scott H.; Tse, Edmund C. M.; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20191213-144717393">Extracellular
DNA Promotes Efficient Extracellular Electron Transfer by Pyocyanin in
Pseudomonas aeruginosa Biofilms</a>; Cell; Vol. 182; No. 4; 919-932;
PMCID PMC7457544; <a
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<li>Razo-Mejia, Manuel; Marzen, Sarah; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20190402-080512452">First-principles
prediction of the information processing capacity of a simple genetic
circuit</a>; Physical Review E; Vol. 102; No. 2; Art. No. 022404; <a
href="https://doi.org/10.1103/PhysRevE.102.022404">10.1103/PhysRevE.102.022404</a></li>
<li>Ruan, Haowen; Liu, Yan; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200324-095704695">Fluorescence
imaging through dynamic scattering media with speckle-encoded
ultrasound-modulated light correlation</a>; Nature Photonics; Vol. 14;
No. 8; 511-516; <a
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<li>Quintero-Cadena, Porfirio; Lenstra, Tineke L.; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20191031-131636300">RNA
Pol II Length and Disorder Enable Cooperative Scaling of Transcriptional
Bursting</a>; Molecular Cell; Vol. 79; No. 2; 207-220; <a
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<li>Barlow, Jacob T.; Bogatyrev, Said R.; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200303-103834329">A
Quantitative Sequencing Framework for Absolute Abundance Measurements of
Mucosal and Lumenal Microbial Communities</a>; Nature Communications;
Vol. 11; Art. No. 2590; PMCID PMC7244552; <a
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<li>Xu, Jian; Cao, Ruizhi; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200416-121840939">Single-shot
surface 3D imaging by optical coherence factor</a>; Optics Letters; Vol.
45; No. 7; 1734-1737; <a
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<li>Min, Jihong; Yang, Yiran; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20190917-132535911">Robotics
in the Gut</a>; Advanced Therapeutics; Vol. 3; No. 4; Art. No. 1900125;
<a
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<li>Davis, Hunter C.; Kang, Sunghwi; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200203-092720672">Nanoscale
Heat Transfer from Magnetic Nanoparticles and Ferritin in an Alternating
Magnetic Field</a>; Biophysical Journal; Vol. 118; No. 6; 1502-1510;
PMCID PMC7091488; <a
href="https://doi.org/10.1016/j.bpj.2020.01.028">10.1016/j.bpj.2020.01.028</a></li>
<li>Einav, Tal; Yazdi, Shahrzad; et al. (2020) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20200117-131810813">Harnessing
Avidity: Quantifying Entropic and Energetic Effects of Linker Length and
Rigidity Required for Multivalent Binding of Antibodies to HIV-1
Spikes</a>; <a
href="https://doi.org/10.1101/406454">10.1101/406454</a></li>
<li>Einav, Tal; Yazdi, Shahrzad; et al. (2019) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20191023-142258650">Harnessing
Avidity: Quantifying the Entropic and Energetic Effects of Linker Length
and Rigidity for Multivalent Binding of Antibodies to HIV-1</a>; Cell
Systems; Vol. 9; No. 5; 466-474; PMCID PMC6892280; <a
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<li>Song, Yu; Min, Jihong; et al. (2019) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20191114-134816642">Wearable
and Implantable Electronics: Moving toward Precision Therapy</a>; ACS
Nano; Vol. 13; No. 11; 12280-12286; <a
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<li>Moen, Erick; Borba, Enrico; et al. (2019) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20191014-100546775">Accurate
cell tracking and lineage construction in live-cell imaging experiments
with deep learning</a>; <a
href="https://doi.org/10.1101/803205">10.1101/803205</a></li>
<li>Zhukov, Dmitriy V.; Khorosheva, Eugenia M.; et al. (2019) <a
href="https://resolver.caltech.edu/CaltechAUTHORS:20190823-090755927">Microfluidic
SlipChip device for multistep multiplexed biochemistry on a nanoliter
scale</a>; Lab on a Chip; Vol. 19; No. 19; 3200-3211; <a
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