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  1. Book ; Online: Synthetic Aperture Anomaly Imaging

    Nathan, Rakesh John Amala Arokia / Bimber, Oliver

    2023  

    Abstract: Previous research has shown that in the presence of foliage occlusion, anomaly detection performs significantly better in integral images resulting from synthetic aperture imaging compared to applying it to conventional aerial images. In this article, we ...

    Abstract Previous research has shown that in the presence of foliage occlusion, anomaly detection performs significantly better in integral images resulting from synthetic aperture imaging compared to applying it to conventional aerial images. In this article, we hypothesize and demonstrate that integrating detected anomalies is even more effective than detecting anomalies in integrals. This results in enhanced occlusion removal, outlier suppression, and higher chances of visually as well as computationally detecting targets that are otherwise occluded. Our hypothesis was validated through both: simulations and field experiments. We also present a real-time application that makes our findings practically available for blue-light organizations and others using commercial drone platforms. It is designed to address use-cases that suffer from strong occlusion caused by vegetation, such as search and rescue, wildlife observation, early wildfire detection, and sur-veillance.
    Keywords Computer Science - Computer Vision and Pattern Recognition ; Electrical Engineering and Systems Science - Image and Video Processing
    Subject code 006
    Publishing date 2023-04-26
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  2. Article ; Online: A little goes a long way: CLE peptides mediate phloem initiation.

    John, Amala / Nimchuk, Zachary L

    Journal of integrative plant biology

    2019  Volume 61, Issue 10, Page(s) 1034–1035

    MeSH term(s) Arabidopsis/cytology ; Arabidopsis/metabolism ; Arabidopsis Proteins/genetics ; Arabidopsis Proteins/metabolism ; Peptides/genetics ; Peptides/metabolism ; Phloem/cytology ; Phloem/metabolism
    Chemical Substances Arabidopsis Proteins ; Peptides
    Language English
    Publishing date 2019-08-27
    Publishing country China (Republic : 1949- )
    Document type Journal Article
    ZDB-ID 2130095-1
    ISSN 1744-7909 ; 1672-9072
    ISSN (online) 1744-7909
    ISSN 1672-9072
    DOI 10.1111/jipb.12868
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  3. Article ; Online: A network of CLAVATA receptors buffers auxin-dependent meristem maintenance.

    John, Amala / Smith, Elizabeth Sarkel / Jones, Daniel S / Soyars, Cara L / Nimchuk, Zachary L

    Nature plants

    2023  Volume 9, Issue 8, Page(s) 1306–1317

    Abstract: Plant body plans are elaborated in response to both environmental and endogenous cues. How these inputs intersect to promote growth and development remains poorly understood. During reproductive development, central zone stem cell proliferation in ... ...

    Abstract Plant body plans are elaborated in response to both environmental and endogenous cues. How these inputs intersect to promote growth and development remains poorly understood. During reproductive development, central zone stem cell proliferation in inflorescence meristems is negatively regulated by the CLAVATA3 (CLV3) peptide signalling pathway. In contrast, floral primordia formation on meristem flanks requires the hormone auxin. Here we show that CLV3 signalling is also necessary for auxin-dependent floral primordia generation and that this function is partially masked by both inflorescence fasciation and heat-induced auxin biosynthesis. Stem cell regulation by CLAVATA signalling is separable from primordia formation but is also sensitized to temperature and auxin levels. In addition, we uncover a novel role for the CLV3 receptor CLAVATA1 in auxin-dependent meristem maintenance in cooler environments. As such, CLV3 signalling buffers multiple auxin-dependent shoot processes across divergent thermal environments, with opposing effects on cell proliferation in different meristem regions.
    MeSH term(s) Meristem/metabolism ; Arabidopsis Proteins/genetics ; Arabidopsis Proteins/metabolism ; Arabidopsis/metabolism ; Indoleacetic Acids/metabolism ; Signal Transduction ; Gene Expression Regulation, Plant
    Chemical Substances Arabidopsis Proteins ; Indoleacetic Acids
    Language English
    Publishing date 2023-08-07
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S.
    ISSN 2055-0278
    ISSN (online) 2055-0278
    DOI 10.1038/s41477-023-01485-y
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  4. Article ; Online: Through-Foliage Tracking with Airborne Optical Sectioning

    Rakesh John Amala Arokia Nathan / Indrajit Kurmi / David C. Schedl / Oliver Bimber

    Journal of Remote Sensing, Vol

    2022  Volume 2022

    Abstract: Detecting and tracking moving targets through foliage is difficult, and for many cases even impossible in regular aerial images and videos. We present an initial light-weight and drone-operated 1D camera array that supports parallel synthetic aperture ... ...

    Abstract Detecting and tracking moving targets through foliage is difficult, and for many cases even impossible in regular aerial images and videos. We present an initial light-weight and drone-operated 1D camera array that supports parallel synthetic aperture aerial imaging. Our main finding is that color anomaly detection benefits significantly from image integration when compared to conventional raw images or video frames (on average 97% vs. 42% in precision in our field experiments). We demonstrate that these two contributions can lead to the detection and tracking of moving people through densely occluding forest.
    Keywords Environmental sciences ; GE1-350 ; Physical geography ; GB3-5030
    Language English
    Publishing date 2022-01-01T00:00:00Z
    Publisher American Association for the Advancement of Science (AAAS)
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  5. Book ; Online: Synthetic Aperture Sensing for Occlusion Removal with Drone Swarms

    Nathan, Rakesh John Amala Arokia / Kurmi, Indrajit / Bimber, Oliver

    2022  

    Abstract: We demonstrate how efficient autonomous drone swarms can be in detecting and tracking occluded targets in densely forested areas, such as lost people during search and rescue missions. Exploration and optimization of local viewing conditions, such as ... ...

    Abstract We demonstrate how efficient autonomous drone swarms can be in detecting and tracking occluded targets in densely forested areas, such as lost people during search and rescue missions. Exploration and optimization of local viewing conditions, such as occlusion density and target view obliqueness, provide much faster and much more reliable results than previous, blind sampling strategies that are based on pre-defined waypoints. An adapted real-time particle swarm optimization and a new objective function are presented that are able to deal with dynamic and highly random through-foliage conditions. Synthetic aperture sensing is our fundamental sampling principle, and drone swarms are employed to approximate the optical signals of extremely wide and adaptable airborne lenses.
    Keywords Computer Science - Robotics ; Computer Science - Computer Vision and Pattern Recognition
    Publishing date 2022-12-30
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  6. Book ; Online: Inverse Airborne Optical Sectioning

    Nathan, Rakesh John Amala Arokia / Kurmi, Indrajit / Bimber, Oliver

    2022  

    Abstract: We present Inverse Airborne Optical Sectioning (IAOS) an optical analogy to Inverse Synthetic Aperture Radar (ISAR). Moving targets, such as walking people, that are heavily occluded by vegetation can be made visible and tracked with a stationary optical ...

    Abstract We present Inverse Airborne Optical Sectioning (IAOS) an optical analogy to Inverse Synthetic Aperture Radar (ISAR). Moving targets, such as walking people, that are heavily occluded by vegetation can be made visible and tracked with a stationary optical sensor (e.g., a hovering camera drone above forest). We introduce the principles of IAOS (i.e., inverse synthetic aperture imaging), explain how the signal of occluders can be further suppressed by filtering the Radon transform of the image integral, and present how targets motion parameters can be estimated manually and automatically. Finally, we show that while tracking occluded targets in conventional aerial images is infeasible, it becomes efficiently possible in integral images that result from IAOS.

    Comment: 12 pages, 5 figures
    Keywords Computer Science - Computer Vision and Pattern Recognition ; Electrical Engineering and Systems Science - Image and Video Processing
    Publishing date 2022-07-27
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  7. Book ; Online: On the Role of Field of View for Occlusion Removal with Airborne Optical Sectioning

    Seits, Francis / Kurmi, Indrajit / Nathan, Rakesh John Amala Arokia / Ortner, Rudolf / Bimber, Oliver

    2022  

    Abstract: Occlusion caused by vegetation is an essential problem for remote sensing applications in areas, such as search and rescue, wildfire detection, wildlife observation, surveillance, border control, and others. Airborne Optical Sectioning (AOS) is an ... ...

    Abstract Occlusion caused by vegetation is an essential problem for remote sensing applications in areas, such as search and rescue, wildfire detection, wildlife observation, surveillance, border control, and others. Airborne Optical Sectioning (AOS) is an optical, wavelength-independent synthetic aperture imaging technique that supports computational occlusion removal in real-time. It can be applied with manned or unmanned aircrafts, such as drones. In this article, we demonstrate a relationship between forest density and field of view (FOV) of applied imaging systems. This finding was made with the help of a simulated procedural forest model which offers the consideration of more realistic occlusion properties than our previous statistical model. While AOS has been explored with automatic and autonomous research prototypes in the past, we present a free AOS integration for DJI systems. It enables bluelight organizations and others to use and explore AOS with compatible, manually operated, off-the-shelf drones. The (digitally cropped) default FOV for this implementation was chosen based on our new finding.

    Comment: 10 pages, 7 figures
    Keywords Computer Science - Computer Vision and Pattern Recognition ; Electrical Engineering and Systems Science - Image and Video Processing
    Publishing date 2022-04-28
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  8. Article ; Online: CLAVATA Signaling Ensures Reproductive Development in Plants across Thermal Environments.

    Jones, Daniel S / John, Amala / VanDerMolen, Kylie R / Nimchuk, Zachary L

    Current biology : CB

    2020  Volume 31, Issue 1, Page(s) 220–227.e5

    Abstract: The ability to thrive in diverse environments requires that species maintain development and reproduction despite dynamic conditions. Many developmental processes are stabilized through robust signaling pathways that cooperatively ensure proper ... ...

    Abstract The ability to thrive in diverse environments requires that species maintain development and reproduction despite dynamic conditions. Many developmental processes are stabilized through robust signaling pathways that cooperatively ensure proper development.
    MeSH term(s) Acclimatization ; Arabidopsis/growth & development ; Arabidopsis/metabolism ; Arabidopsis Proteins/genetics ; Arabidopsis Proteins/metabolism ; Cold Temperature ; Flowers/growth & development ; Flowers/metabolism ; Hot Temperature ; Indoleacetic Acids/metabolism ; Membrane Proteins/genetics ; Membrane Proteins/metabolism ; Mutagenesis ; Oxygenases/metabolism ; Plants, Genetically Modified ; Protein Serine-Threonine Kinases/genetics ; Protein Serine-Threonine Kinases/metabolism ; RNA-Seq ; Receptors, Cell Surface/genetics ; Receptors, Cell Surface/metabolism ; Signal Transduction/physiology ; Transcription Factors/metabolism ; Up-Regulation
    Chemical Substances Arabidopsis Proteins ; CLV2 protein, Arabidopsis ; ELF3 protein, Arabidopsis ; Indoleacetic Acids ; Membrane Proteins ; Receptors, Cell Surface ; Transcription Factors ; Oxygenases (EC 1.13.-) ; YUC protein, Arabidopsis (EC 1.13.14.-) ; CLV1 protein, Arabidopsis (EC 2.7.11.1) ; CORYNE protein, Arabidopsis (EC 2.7.11.1) ; Protein Serine-Threonine Kinases (EC 2.7.11.1)
    Language English
    Publishing date 2020-11-05
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, U.S. Gov't, Non-P.H.S. ; Video-Audio Media
    ZDB-ID 1071731-6
    ISSN 1879-0445 ; 0960-9822
    ISSN (online) 1879-0445
    ISSN 0960-9822
    DOI 10.1016/j.cub.2020.10.008
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  9. Article ; Online: MTHFD1 controls DNA methylation in Arabidopsis.

    Groth, Martin / Moissiard, Guillaume / Wirtz, Markus / Wang, Haifeng / Garcia-Salinas, Carolina / Ramos-Parra, Perla A / Bischof, Sylvain / Feng, Suhua / Cokus, Shawn J / John, Amala / Smith, Danielle C / Zhai, Jixian / Hale, Christopher J / Long, Jeff A / Hell, Ruediger / Díaz de la Garza, Rocío I / Jacobsen, Steven E

    Nature communications

    2016  Volume 7, Page(s) 11640

    Abstract: DNA methylation is an epigenetic mechanism that has important functions in transcriptional silencing and is associated with repressive histone methylation (H3K9me). To further investigate silencing mechanisms, we screened a mutagenized Arabidopsis ... ...

    Abstract DNA methylation is an epigenetic mechanism that has important functions in transcriptional silencing and is associated with repressive histone methylation (H3K9me). To further investigate silencing mechanisms, we screened a mutagenized Arabidopsis thaliana population for expression of SDCpro-GFP, redundantly controlled by DNA methyltransferases DRM2 and CMT3. Here, we identify the hypomorphic mutant mthfd1-1, carrying a mutation (R175Q) in the cytoplasmic bifunctional methylenetetrahydrofolate dehydrogenase/methenyltetrahydrofolate cyclohydrolase (MTHFD1). Decreased levels of oxidized tetrahydrofolates in mthfd1-1 and lethality of loss-of-function demonstrate the essential enzymatic role of MTHFD1 in Arabidopsis. Accumulation of homocysteine and S-adenosylhomocysteine, genome-wide DNA hypomethylation, loss of H3K9me and transposon derepression indicate that S-adenosylmethionine-dependent transmethylation is inhibited in mthfd1-1. Comparative analysis of DNA methylation revealed that the CMT3 and CMT2 pathways involving positive feedback with H3K9me are mostly affected. Our work highlights the sensitivity of epigenetic networks to one-carbon metabolism due to their common S-adenosylmethionine-dependent transmethylation and has implications for human MTHFD1-associated diseases.
    MeSH term(s) Arabidopsis/genetics ; Arabidopsis Proteins/genetics ; Arabidopsis Proteins/metabolism ; Cytoplasm/drug effects ; Cytoplasm/metabolism ; DNA Demethylation ; DNA Methylation/genetics ; Epigenesis, Genetic ; Folic Acid/metabolism ; Gene Expression Regulation, Plant/drug effects ; Gene Silencing ; Green Fluorescent Proteins/metabolism ; Histones/metabolism ; Homeostasis/drug effects ; Lysine/metabolism ; Methenyltetrahydrofolate Cyclohydrolase/genetics ; Methenyltetrahydrofolate Cyclohydrolase/metabolism ; Methionine/pharmacology ; Methylenetetrahydrofolate Dehydrogenase (NADP)/genetics ; Methylenetetrahydrofolate Dehydrogenase (NADP)/metabolism ; Models, Biological ; Mutation/genetics ; Protein Transport/drug effects ; S-Adenosylmethionine/metabolism ; Tetrahydrofolates/pharmacology
    Chemical Substances Arabidopsis Proteins ; Histones ; Tetrahydrofolates ; 5,10-methylenetetrahydrofolic acid (0SXY5ET48B) ; Green Fluorescent Proteins (147336-22-9) ; S-Adenosylmethionine (7LP2MPO46S) ; Folic Acid (935E97BOY8) ; Methionine (AE28F7PNPL) ; MTHFD1 protein, Arabidopsis (EC 1.5.1.5) ; Methylenetetrahydrofolate Dehydrogenase (NADP) (EC 1.5.1.5) ; Methenyltetrahydrofolate Cyclohydrolase (EC 3.5.4.9) ; Lysine (K3Z4F929H6)
    Language English
    Publishing date 2016-06-13
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2041-1723
    ISSN (online) 2041-1723
    DOI 10.1038/ncomms11640
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  10. Article ; Online: A functional genomics screen identifying blood cell development genes in Drosophila by undergraduates participating in a course-based research experience.

    Evans, Cory J / Olson, John M / Mondal, Bama Charan / Kandimalla, Pratyush / Abbasi, Ariano / Abdusamad, Mai M / Acosta, Osvaldo / Ainsworth, Julia A / Akram, Haris M / Albert, Ralph B / Alegria-Leal, Elitzander / Alexander, Kai Y / Ayala, Angelica C / Balashova, Nataliya S / Barber, Rebecca M / Bassi, Harmanjit / Bennion, Sean P / Beyder, Miriam / Bhatt, Kush V /
    Bhoot, Chinmay / Bradshaw, Aaron W / Brannigan, Tierney G / Cao, Boyu / Cashell, Yancey Y / Chai, Timothy / Chan, Alex W / Chan, Carissa / Chang, Inho / Chang, Jonathan / Chang, Michael T / Chang, Patrick W / Chang, Stephen / Chari, Neel / Chassiakos, Alexander J / Chen, Iris E / Chen, Vivian K / Chen, Zheying / Cheng, Marsha R / Chiang, Mimi / Chiu, Vivian / Choi, Sharon / Chung, Jun Ho / Contreras, Liset / Corona, Edgar / Cruz, Courtney J / Cruz, Renae L / Dang, Jefferson M / Dasari, Suhas P / De La Fuente, Justin R O / Del Rio, Oscar M A / Dennis, Emily R / Dertsakyan, Petros S / Dey, Ipsita / Distler, Rachel S / Dong, Zhiqiao / Dorman, Leah C / Douglass, Mark A / Ehresman, Allysen B / Fu, Ivy H / Fua, Andrea / Full, Sean M / Ghaffari-Rafi, Arash / Ghani, Asmar Abdul / Giap, Bosco / Gill, Sonia / Gill, Zafar S / Gills, Nicholas J / Godavarthi, Sindhuja / Golnazarian, Talin / Goyal, Raghav / Gray, Ricardo / Grunfeld, Alexander M / Gu, Kelly M / Gutierrez, Natalia C / Ha, An N / Hamid, Iman / Hanson, Ashley / Hao, Celesti / He, Chongbin / He, Mengshi / Hedtke, Joshua P / Hernandez, Ysrael K / Hlaing, Hnin / Hobby, Faith A / Hoi, Karen / Hope, Ashley C / Hosseinian, Sahra M / Hsu, Alice / Hsueh, Jennifer / Hu, Eileen / Hu, Spencer S / Huang, Stephanie / Huang, Wilson / Huynh, Melanie / Javier, Carmen / Jeon, Na Eun / Ji, Sunjong / Johal, Jasmin / John, Amala / Johnson, Lauren / Kadakia, Saurin / Kakade, Namrata / Kamel, Sarah / Kaur, Ravinder / Khatra, Jagteshwar S / Kho, Jeffrey A / Kim, Caleb / Kim, Emily Jin-Kyung / Kim, Hee Jong / Kim, Hyun Wook / Kim, Jin Hee / Kim, Seong Ah / Kim, Woo Kyeom / Kit, Brian / La, Cindy / Lai, Jonathan / Lam, Vivian / Le, Nguyen Khoi / Lee, Chi Ju / Lee, Dana / Lee, Dong Yeon / Lee, James / Lee, Jason / Lee, Jessica / Lee, Ju-Yeon / Lee, Sharon / Lee, Terrence C / Lee, Victoria / Li, Amber J / Li, Jialing / Libro, Alexandra M / Lien, Irvin C / Lim, Mia / Lin, Jeffrey M / Liu, Connie Y / Liu, Steven C / Louie, Irene / Lu, Shijia W / Luo, William Y / Luu, Tiffany / Madrigal, Josef T / Mai, Yishan / Miya, Darron I / Mohammadi, Mina / Mohanta, Sayonika / Mokwena, Tebogo / Montoya, Tonatiuh / Mould, Dallas L / Murata, Mark R / Muthaiya, Janani / Naicker, Seethim / Neebe, Mallory R / Ngo, Amy / Ngo, Duy Q / Ngo, Jamie A / Nguyen, Anh T / Nguyen, Huy C X / Nguyen, Rina H / Nguyen, Thao T T / Nguyen, Vincent T / Nishida, Kevin / Oh, Seo-Kyung / Omi, Kristen M / Onglatco, Mary C / Almazan, Guadalupe Ortega / Paguntalan, Jahzeel / Panchal, Maharshi / Pang, Stephanie / Parikh, Harin B / Patel, Purvi D / Patel, Trisha H / Petersen, Julia E / Pham, Steven / Phan-Everson, Tien M / Pokhriyal, Megha / Popovich, Davis W / Quaal, Adam T / Querubin, Karl / Resendiz, Anabel / Riabkova, Nadezhda / Rong, Fred / Salarkia, Sarah / Sama, Nateli / Sang, Elaine / Sanville, David A / Schoen, Emily R / Shen, Zhouyang / Siangchin, Ken / Sibal, Gabrielle / Sin, Garuem / Sjarif, Jasmine / Smith, Christopher J / Soeboer, Annisa N / Sosa, Cristian / Spitters, Derek / Stender, Bryan / Su, Chloe C / Summapund, Jenny / Sun, Beatrice J / Sutanto, Christine / Tan, Jaime S / Tan, Nguon L / Tangmatitam, Parich / Trac, Cindy K / Tran, Conny / Tran, Daniel / Tran, Duy / Tran, Vina / Truong, Patrick A / Tsai, Brandon L / Tsai, Pei-Hua / Tsui, C Kimberly / Uriu, Jackson K / Venkatesh, Sanan / Vo, Maique / Vo, Nhat-Thi / Vo, Phuong / Voros, Timothy C / Wan, Yuan / Wang, Eric / Wang, Jeffrey / Wang, Michael K / Wang, Yuxuan / Wei, Siman / Wilson, Matthew N / Wong, Daniel / Wu, Elliott / Xing, Hanning / Xu, Jason P / Yaftaly, Sahar / Yan, Kimberly / Yang, Evan / Yang, Rebecca / Yao, Tony / Yeo, Patricia / Yip, Vivian / Yogi, Puja / Young, Gloria Chin / Yung, Maggie M / Zai, Alexander / Zhang, Christine / Zhang, Xiao X / Zhao, Zijun / Zhou, Raymond / Zhou, Ziqi / Abutouk, Mona / Aguirre, Brian / Ao, Chon / Baranoff, Alexis / Beniwal, Angad / Cai, Zijie / Chan, Ryan / Chien, Kenneth Chang / Chaudhary, Umar / Chin, Patrick / Chowdhury, Praptee / Dalie, Jamlah / Du, Eric Y / Estrada, Alec / Feng, Erwin / Ghaly, Monica / Graf, Rose / Hernandez, Eduardo / Herrera, Kevin / Ho, Vivien W / Honeychurch, Kaitlyn / Hou, Yurianna / Huang, Jo M / Ishii, Momoko / James, Nicholas / Jang, Gah-Eun / Jin, Daphne / Juarez, Jesse / Kesaf, Ayse Elif / Khalsa, Sat Kartar / Kim, Hannah / Kovsky, Jenna / Kuang, Chak Lon / Kumar, Shraddha / Lam, Gloria / Lee, Ceejay / Lee, Grace / Li, Li / Lin, Joshua / Liu, Josephine / Ly, Janice / Ma, Austin / Markovic, Hannah / Medina, Cristian / Mungcal, Jonelle / Naranbaatar, Bilguudei / Patel, Kayla / Petersen, Lauren / Phan, Amanda / Phung, Malcolm / Priasti, Nadiyah / Ruano, Nancy / Salim, Tanveer / Schnell, Kristen / Shah, Paras / Shen, Jinhua / Stutzman, Nathan / Sukhina, Alisa / Tian, Rayna / Vega-Loza, Andrea / Wang, Joyce / Wang, Jun / Watanabe, Rina / Wei, Brandon / Xie, Lillian / Ye, Jessica / Zhao, Jeffrey / Zimmerman, Jill / Bracken, Colton / Capili, Jason / Char, Andrew / Chen, Michel / Huang, Pingdi / Ji, Sena / Kim, Emily / Kim, Kenneth / Ko, Julie / Laput, Sean Louise G / Law, Sam / Lee, Sang Kuk / Lee, Olivia / Lim, David / Lin, Eric / Marik, Kyle / Mytych, Josh / O'Laughlin, Andie / Pak, Jensen / Park, Claire / Ryu, Ruth / Shinde, Ashwin / Sosa, Manny / Waite, Nick / Williams, Mane / Wong, Richard / Woo, Jocelyn / Woo, Jonathan / Yepuri, Vishaal / Yim, Dorothy / Huynh, Dan / Wijiewarnasurya, Dinali / Shapiro, Casey / Levis-Fitzgerald, Marc / Jaworski, Leslie / Lopatto, David / Clark, Ira E / Johnson, Tracy / Banerjee, Utpal

    G3 (Bethesda, Md.)

    2021  Volume 11, Issue 1

    Abstract: Undergraduate students participating in the UCLA Undergraduate Research Consortium for Functional Genomics (URCFG) have conducted a two-phased screen using RNA interference (RNAi) in combination with fluorescent reporter proteins to identify genes ... ...

    Abstract Undergraduate students participating in the UCLA Undergraduate Research Consortium for Functional Genomics (URCFG) have conducted a two-phased screen using RNA interference (RNAi) in combination with fluorescent reporter proteins to identify genes important for hematopoiesis in Drosophila. This screen disrupted the function of approximately 3500 genes and identified 137 candidate genes for which loss of function leads to observable changes in the hematopoietic development. Targeting RNAi to maturing, progenitor, and regulatory cell types identified key subsets that either limit or promote blood cell maturation. Bioinformatic analysis reveals gene enrichment in several previously uncharacterized areas, including RNA processing and export and vesicular trafficking. Lastly, the participation of students in this course-based undergraduate research experience (CURE) correlated with increased learning gains across several areas, as well as increased STEM retention, indicating that authentic, student-driven research in the form of a CURE represents an impactful and enriching pedagogical approach.
    MeSH term(s) Animals ; Blood Cells ; Drosophila/genetics ; Genomics/education ; Humans ; Students ; Universities
    Language English
    Publishing date 2021-02-12
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2629978-1
    ISSN 2160-1836 ; 2160-1836
    ISSN (online) 2160-1836
    ISSN 2160-1836
    DOI 10.1093/g3journal/jkaa028
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