cometadata/datacite-rtg-text-other-reclassification-records huggingface dataset:
Reactivation of the inactive X chromosome in adult stem cells and breast cancer
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: X chromosome inactivation is an epigenetic process that occurs during female mammalian development. One of the two X chromosomes in females is transcriptionally silenced early in embryogenesis in order to equalize X-linked gene dosage with XY males. Once silenced, the inactive X chromosome (Xi) is maintained clonally throughout the female’s lifetime. However, many human female-specific cancers, including breast and germ cell tumors and non-Hodgkin’s lymphomas, show loss of the Xi and a gain of active X chromosomes (Xa), either through Xa duplication and loss of the Xi, or through reactivation of the Xi, but it is not known if this association is merely correlative or causal. Since a large number of oncogenes is present on the X chromosome, X chromosome abnormalities (which could be considered functionally equivalent to gene amplifications) could indeed directly contribute to cancer development. Furthermore, deletion of the tumor suppressor BRCA1 leads to reactivation of genes on the Xi and interferes with normal X chromosome silencing mechanisms. In this proposal, we will test the hypothesis that reactivation of the Xi directly contributes to cancer development. We will induce reactivation of the Xi by deleting the X-linked gene Xist in different tissues of the mouse. Xist encodes a non-coding RNA that is essential and sufficient for initiating X chromosome inactivation and has been shown to contribute to the maintenance of the silent state of the Xi in fully differentiated cells. Given the link between BRCA1 and X- inactivation, we will further focus on breast cancer and study if reactivation of the Xi can cooperate with an oncogene in tumor progression using a mammary gland reconstitution assay. In adult animals, the stability of the inactive state of the Xi is not really known and certain cells, especially less differentiated adult stem and progenitor cells, may reactivate their Xi more easily than their fully differentiated counterparts. Hence, we will also determine if the Xi is more prone to reactivation in adult stem cells compared to fully differentiated cells. If so, reactivation of the Xi in cancer stem cells may be an important mechanism in cancers.
Ctenogobius boleosoma
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Ctenogobius
Ctenogobius boleosoma

description: Ctenogobius boleosoma (Jordan & Gilbert 1882). Darter Goby; Esmeralda Flechera, Madrejuile
Vouchers: Not available. Distribution: Western Atlantic Ocean; from North Carolina, USA, Bahamas, and the northern Gulf of Mexico, Mexico, to Rio de Janeiro, Brazil; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) KP and Es (Atlantic); 0–6 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2019), population trend stable. Literature: Villa (1982: 229, as Gobionellus boleosoma —synonym; detailed description, including illustrations and an identification key, and information on distribution and ecology), Robertson & Van Tassell (2019: 4126; detailed description, including illustrations, and information on distribution, with a map, and ecology) and Angulo (2021: 37; listed, including information on distribution).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 36, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788
Synthesis and evaluation of the extremophile natural product berkelic acid and its derivatives: Developing selective inhibitors of OVCAR-3 and Matrix metalloproteinases
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Berkelic acid (1), an unusual molecule, was found in 2006 near Yellowstone National Park amongst green slime thriving in an aqueous pit with a pH 2.5 filled with acid and heavy metal contaminants. It is presumed that compound 1 protects the penicillium extremophile that produces it from the lethality of its surroundings. The compound inhibits OVCAR-3, an aggressive and therapeutically resistant ovarian carcinoma. Compound 1 displays a 91 nanomolar IG50 towards this cell line. It seems to target several matrix-metalloproteinases (MMPs). The function of MMPs and the role these zinc dependent endopeptidases play as well as the means and mechanism by which berkelic acid (1) inhibits MMPs is not fully understood. Among the diverse functionality within the molecule, the ß-dione, salicylic acid and spiroketal moieties might serve as zinc chelators; or perhaps the spiroketal serves as a transition state analog to the amide hydrolysis that is carried-out by MMPs. Regardless of its mechanism of action, the structure of 1 is so vastly different from all the other known MMP inhibitors that it compels further studies of its structure in relation to its bioactivity. However, supplies of 1 and the organism that produces it are limited. Cultivation of the penicillium would only provide compound 1 by itself. Moreover, the relative and absolute structure of portions of compound 1 remain unknown. Because cultivation would NOT enable the elucidation of the key structural features of the pharmacophore responsible for activity or lead to new analogs possessing greater selectivity among the 23 known MMPs, we are proposing to synthesize 1 and evaluate the compound and its analogs for bioactivity. Given the lack of a complete structural assignment, we propose a synthesis that can address the four potential stereoisomers. This malleable strategy is critical because parts of the relative and absolute structure are unknown. However, this pliant strategy also enables us to complete a rather extensive structure activity study of 1. Because this is an extensive project, we propose a racemic synthesis of an analog of 1 and a non-racemic synthesis of the enol ether 4 to be completed in phase I and II with the support of this award. These preliminary studies would then serve as the underpinnings of a NIH proposal aimed at the subsequent goals, completion of the enantioselective synthesis of 1 (Phase III), and a thorough cell and enzyme study designed to elucidate the pharmacophore and key structural features respo
Gomphocerinae Fieber 1853
Creators: name: Sultana, Riffat
name: Song, Hojun
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Gomphocerinae

description: Gomphocerinae Fieber, 1853
Tribe Arcypterini Bolívar, 1914
Genus Aulacobothrus Bolívar, 1902
56. Aulacobothrus luteipes (Walker, 1871)
57. Aulacobothrus punjabensis Baloch & Wagan, 2000
Genus Brachycrotaphus Krauss, 1877
58. Brachycrotaphus longiceps (Bolívar, 1902)
Tribe Gomphocerini Fieber, 1853
Genus Chorthippus Fieber, 1852
59. Chorthippus (Chorthippus) dorsatus (Zetterstedt, 1821) 60. Chorthippus (Chorthippus) indus Uvarov, 1942 61. Chorthippus angulatus Tarbinsky, 1927
Tribe Dociostaurini Mistshenko, 1974
Genus Dociostaurus Fieber, 1853
62. Dociostaurus (Dociostaurus) maroccanus (Thunberg, 1815) 63. Dociostaurus (Dociostaurus) pecularis Moeed, 1971 64. Dociostaurus (Kazakia) tartarus Stshelkanovtzev, 1921
Genus Leva Bolívar, 1909
65. Leva hemiptera (Uvarov, 1952)
66. Leva indica (Bolívar, 1902)
Genus Notostaurus Bey-Bienko, 1933
67. Notostaurus albicornis (Eversmann, 1848)
Genus Gelastorhinus Brunner von Wattenwyl, 1893 68. Gelastorhinus semipictus (Walker, 1870
Tribe Ochrilidiini Brunner von Wattenwyl, 1893
Genus Gonista Bolívar, 1898
69. Gonista rotundata Uvarov, 1933
70. Gonista sagitta (Uvarov, 1912)
Genus Ochrilidia Stål, 1873
71. Ochrilidia geniculata (Bolívar, 1913)
72. Ochrilidia gracilis (Krauss, 1902)
73. Ochrilidia beybienkoi Cejchan, 1969
74. Ochrilidia ahmadi Wagan & Baloch, 2001
75. Ochrilidia jagoi Wagan, Baloch & Khatri, 2017
Genus Oxypterna Ramme, 1952
76. Oxypterna afghana Ramme, 1952
77. Oxypterna akbari Moeed, 1971
78. Oxypterna isoformis Moeed, 1971
Tribe Arcypterini Bolívar, 1914
Genus Leionotacris Jago, 1996
79. Leionotacris beshamensis Sultana & Wagan, 2003 80. Leionotacris Bolívari (Uvarov, 1921)
Genus Mesopsis Bolívar, 1906
81. Mesopsis cylindricus (Kirby, 1914)
82. Mesopsis iranicus (Uvarov, 1933
Genus Stenohippus Uvarov, 1926
83. Stenohippus mundus (Walker, 1871)
84. Stenohippus trapezoidalis (Bolívar, 1914)
85. Stenohippus xanthus (Karny,1907)
description: Published as part of Sultana, Riffat & Song, Hojun, 2024, Annotated catalogue of Pakistani Acrididae (Orthoptera: Caelifera: Acridoidea), pp. 1-47 in Zootaxa 5486 (1) on pages 7-8, DOI: 10.11646/zootaxa.5486.1.1, http://zenodo.org/record/13209743
Ctenogobius pseudofasciatus
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Ctenogobius
Ctenogobius pseudofasciatus

description: Ctenogobius pseudofasciatus (Gilbert & Randall 1971. Slashcheek Goby; Gobio de Mejilla Rayada
Vouchers: LSUMZ 15347 (1). Distribution: Western Atlantic Ocean; from Florida, USA, to Trinidad and Tobago and Venezuela; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) WK (Atlantic); 0–6 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2015), population trend unknown. Literature: Robertson & Van Tassell (2019: 4130; detailed description, including illustrations, and information on distribution, with a map, and ecology) and Angulo (2021: 37; listed, including information on distribution).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 36, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788
Parachilota multipapillatus Zicsi 1998
Creators: name: Csuzdi, Csaba
name: Szederjesi, Tímea
name: Sherlock, Emma
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Annelida
Clitellata
Opisthopora
Acanthodrilidae
Parachilota
Parachilota multipapillatus

description: Parachilota multipapillatus Zicsi, 1998
Parachilota multipapillatus Zicsi, 1998a Mitt. Hamb. Zool. Mus. Inst. 95: 65.
description: Published as part of Csuzdi, Csaba, Szederjesi, Tímea & Sherlock, Emma, 2018, Annotated checklist of earthworm species described by András Zicsi (Clitellata: Megadrili), pp. 11-42 in Zootaxa 4496 (1) on page 13, DOI: 10.11646/zootaxa.4496.1.4, http://zenodo.org/record/1447011
EMPOWERING WEAVERS: TRAINING ON WORKERS COMMITMENT IN HANDLOOM WEAVING COOPERATIVE SOCIETIES
Creators: name: RESHMI JK BABU
name: SHEKHAR BABU
name: P.S. RAJESWARI
Publisher: name: Zenodo
Year: 2025
Subjects: Handloom Weaving Cooperative Societies, Workers Satisfaction, Workers Commitment, Workers Training, Individual Development, Organisational Growth, Human Resource Management.

description: Abstract

The handloom industry in India is renowned for its exceptional craftsmanship, reflecting the vibrant Indian culture through exquisite hand spinning, weaving, and printing skills. Predominantly household-based, this industry spans thousands of towns and villages, with skills passed down through generations. The sector has employed many artisans from rural and semi-urban areas, including many women and economically disadvantaged individuals. It benefits from inexpensive and plentiful labor, local resource utilization, low capital investment, unique craftsmanship, and increasing international recognition. Despite these strengths, the industry represents only a small fraction of Indian exports, necessitating efforts to promote and channelize its offerings. A study conducted in Kerala, known for its deep-rooted connection with the handloom industry, highlights the sector’s role as a major employment source, second only to the coir sector. The industry is predominantly cooperative, covering 98.4% of total looms. The study’s model, with an SRMR value of 0.023 and an NFI of 0.937, indicates a good fit. Path coefficient values show a positive effect of workers’ training on satisfaction (0.944) and commitment (0.312), with R² values is of 0.892 and 0.954, respectively. Effective training in handloom weaving cooperative societies enhances workers’ satisfaction and commitment, contributing to organizational success and personal development.
Hemiacridinae Dirsh 1956
Creators: name: Sultana, Riffat
name: Song, Hojun
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Acrididae

description: Hemiacridinae Dirsh, 1956
Tribe Hieroglyphini Bolívar, 1912
Genus Hieroglyphus Krauss, 1877
86. Hieroglyphus annulicornis (Shiraki, 1910) 87. Hieroglyphus banian (Fabricius, 1798)
88. Hieroglyphus concolor (Walker, 1870)
89. Hieroglyphus nigrorepletus Bolívar, 1912 90. Hieroglyphus oryzivorus Carl, 1916
91. Hieroglyphus perpolita (Uvarov 1932)
92. Hieroglyphus akbari Sultana & Wagan, 2012
Genus Parahieroglyphus Carl, 1916
93. Parahieroglyphus bilineatus ((Saussure, 1912
Tribe Leptacrini Johnston, 1956
Genus Leptacris Walker, 1870
94. Leptacris azgharloonesis (Tokhai, Wagan & Soomro 1999) 95. Leptacris monteiroi vittata (Fabricius, 1787)
description: Published as part of Sultana, Riffat & Song, Hojun, 2024, Annotated catalogue of Pakistani Acrididae (Orthoptera: Caelifera: Acridoidea), pp. 1-47 in Zootaxa 5486 (1) on page 8, DOI: 10.11646/zootaxa.5486.1.1, http://zenodo.org/record/13209743
Ctenogobius sagittula
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Ctenogobius
Ctenogobius sagittula

description: Ctenogobius sagittula (Günther 1862). Lancetail Goby, Longtail Goby; Gobio Aguzado
Vouchers: UCR 0482-002 (1); other collections: UF 141441 (1) and 142445 (1). Distribution: Eastern Pacific Ocean; from San Diego Bay, California, USA, to Peru; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) PN and Ni (Pacific); 0–5 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2010), population trend unknown. Literature: Villa (1982: 229, as Gobionellus sagittula —synonym; detailed description, including illustrations and an identification key, and information on distribution and ecology), Robertson & Allen (2015: 2103; detailed description, including illustrations, and information on distribution, with a map, and ecology) and Angulo (2021: 37; listed, including information on distribution).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 37, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788
Evorthodus lyricus
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Evorthodus
Evorthodus lyricus

description: Evorthodus lyricus (Girard 1858). Lyre Goby; Gobio Lira, Tismiche
Vouchers: (other collections) UF 106972 (1). Distribution: Western Atlantic Ocean; Chesapeake Bay, USA, to São Paulo, Brazil; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) KP and Es (Atlantic); 0–6 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2019), population trend unknown. Literature: Villa (1982: 228; detailed description, including illustrations and an identification key, and information on distribution and ecology), Robertson & Van Tassell (2019: 4166; detailed description, including illustrations, and information on distribution, with a map, and ecology) and Angulo (2021: 37; listed, including information on distribution).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 37, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788
Melanoplinae Scudder 1897
Creators: name: Sultana, Riffat
name: Song, Hojun
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Acrididae

description: Melanoplinae Scudder, 1897
Tribe Podismini Jacobson, 1905
Genus Dicranophyma Uvarov, 1921 96. Dicranophyma hingstoni Uvarov, 1921
description: Published as part of Sultana, Riffat & Song, Hojun, 2024, Annotated catalogue of Pakistani Acrididae (Orthoptera: Caelifera: Acridoidea), pp. 1-47 in Zootaxa 5486 (1) on page 8, DOI: 10.11646/zootaxa.5486.1.1, http://zenodo.org/record/13209743
Additional file 2: of Changes of intestinal microbiota composition and diversity in very low birth weight infants related to strategies of NEC prophylaxis: protocol for an observational multicentre pilot study
Creators: name: Kurath-Koller, Stefan
name: Moissl-Eichinger, Christine
name: Gorkiewicz, Gregor
name: Kraschl, Raimund
name: Kanduth, Claudia
name: Hopfer, Barbara
name: Urlesberger, Berndt
name: Resch, Bernhard
Publisher: name: Figshare
Year: 2017
Subjects: subject: Physiology
subject: FOS: Biological sciences
subject: 39999 Chemical Sciences not elsewhere classified
subject: FOS: Chemical sciences
subject: Ecology
subject: Sociology
subject: FOS: Sociology
subject: 69999 Biological Sciences not elsewhere classified
subject: Science Policy
subject: Computational Biology

description: SPIRIT flow-chart. (DOC 53 kb)
Meta-modelling kindness
Creators: name: Alrimawi, Faeq
name: Nuseibeh, Bashar
Publisher: name: University of Limerick
Year: 2025
Subjects: classificationCode: 4612
subject: Software engineering

description: Kindness is a psycho-social phenomenon that is also recognized as an important pro-social behaviour. The use of digital technology provides opportunities to promote kindness in various ways, such as in social media campaigns and online communities. In principle, software engineers are well positioned to develop automated systems that can facilitate software-mediated kindness. However, in practice, incorporating kindness concerns explicitly in the development and use of software systems is challenging: kindness is highly context dependent, affected by a range of factors such as intentions and opportunity.In this paper, we explore systematic ways in which kindness concerns can be considered by software engineers. We propose a novel meta-model that captures essential entities and relations associated with kindness. The meta-model enables the representation of possible instances or opportunities for performing acts of kindness, by considering the actors involved (such as giver, receiver, and observer), their psychological and social attributes that promote kindness (such as emotional states and social relatedness), the acts needed to fulfil kindness opportunities (such as motivation, ability, and timeliness), and other contextual factors (such as location and time). Our meta-model is demonstrated through two software application scenarios that enable charitable donations and kindness in business. Overall, our proposal offers a first, tentative, but concrete step towards enabling kind computing, and promoting kindness in software systems.
Parachilota papillatus Zicsi 1993
Creators: name: Csuzdi, Csaba
name: Szederjesi, Tímea
name: Sherlock, Emma
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Annelida
Clitellata
Opisthopora
Acanthodrilidae
Parachilota
Parachilota papillatus

description: Parachilota papillatus Zicsi, 1993
Parachilota papillatus Zicsi, 1993b Mitt. Hamb. Zool. Mus. Inst. 90: 153.
description: Published as part of Csuzdi, Csaba, Szederjesi, Tímea & Sherlock, Emma, 2018, Annotated checklist of earthworm species described by András Zicsi (Clitellata: Megadrili), pp. 11-42 in Zootaxa 4496 (1) on page 13, DOI: 10.11646/zootaxa.4496.1.4, http://zenodo.org/record/1447011
Evorthodus minutus Meek & Hildebrand 1928
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Evorthodus
Evorthodus minutus

description: Evorthodus minutus Meek & Hildebrand 1928. Red-Fin Goby, Small Goby; Gobio Aletas Rojas, Gobio Pequeño
Vouchers: (other collections) UF 106979 (1). Distribution: Eastern Pacific Ocean; from Sonora, Mexico, to Ecuador, including the Galapagos islands; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) PN (Pacific); 0–5 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2019), population trend unknown. Literature: Robertson & Allen (2015: 2086; detailed description, including illustrations, and information on distribution, with a map, and ecology) and Angulo (2021: 37; listed, including information on distribution).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 37, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788
Optimization of bladder cancer-specific ligands
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Bladder cancer is ideal for targeted therapy because 75-80% of patients present with superficial diseases that are easily accessible through intravesical therapy. Furthermore, bladder is relatively isolated from the rest of the human body. I hypothesize that bladder cancer and normal urothelial cells have different cell surface molecules that can be targeted for diagnosis, imaging detection and targeted therapy. By screening one-bead one-compound (OBOC) combinatorial peptide libraries against bladder cancer and normal urothelial cells, I have identified three ligands that bind to bladder cancer cells but not to normal urothelial cells. Two of the three ligands do not bind to blood cells that are commonly present in the urine from bladder cancer patients. These two ligands can still bind to cells in urine (pH 6.0). I also showed that beads coated with cancer-specific ligands could capture cancer cells at 1:100,000 dilutions with normal cells. I this project, I propose to optimize the binding affinity of these bladder cancer-specific ligands and determine the binding affinity and specificity after optimization. After finishing this project, I expect to have ligands that have high affinity and specificity for bladder cancer. These ligands have the potentials to be used to capture cancer cells in urine for diagnosis and follow-up, and for imaging detection and targeted therapy of superficial and metastatic bladder cancer. Specific aims of this application are to: Aim 1. Screen OBOC libraries for ligands specific for bladder cancer. I have screened two different OBOC libraries against four different cell lines and identified three cancer-specific ligands. I will determine the binding of these ligands against other cells. Aim 2. Optimize the binding affinity and specificity of the bladder cancer-specific ligands. First, I will identify the critical amino acids for cell bindings using alanine walking and deletion study. Then, I will construct focused libraries by fixing the critical amino acids and replacing the non-critical amino acids with other natural and unnatural amino acids, and screen these focused libraries under high stringent conditions for the ligands that have higher affinity for bladder cancer cells. I will also determine the binding affinity and specificity after optimization.
Oxyinae Brunner von Wattenwyl 1893
Creators: name: Sultana, Riffat
name: Song, Hojun
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Acrididae

description: Oxyinae Brunner von Wattenwyl, 1893
Tribe Oxyini Brunner von Wattenwyl, 1893
Genus Oxya Serville, 1831
153. Oxya fuscovittata (Marschall, 1836)
154. Oxya hyla Serville, 183
155. Oxya japonica (Thunbeg, 1824)
156. Oxya nitidula (Walker, 1870)
157. Oxya velox (Fabricius, 1787)
158. Oxya kashmorensis Sultana, Soomro & Wagan, 2020
Genus Oxyina Hollis, 1975
159. Oxyina bidentata (Willemse, 1925)
160. Oxyina javana (Willemse, 1955)
161. Oxyina sinobidentata (Hollis, 1971
description: Published as part of Sultana, Riffat & Song, Hojun, 2024, Annotated catalogue of Pakistani Acrididae (Orthoptera: Caelifera: Acridoidea), pp. 1-47 in Zootaxa 5486 (1) on page 10, DOI: 10.11646/zootaxa.5486.1.1, http://zenodo.org/record/13209743
MOESM3 of Population structure and genomic inbreeding in nine Swiss dairy cattle populations
Creators: name: Signer-Hasler, Heidi
name: Burren, Alexander
name: Neuditschko, Markus
name: Frischknecht, Mirjam
name: Garrick, Dorian
name: Stricker, Christian
name: Gredler, Birgit
name: Bapst, Beat
name: Flury, Christine
Publisher: name: Figshare
Year: 2017
Subjects: subject: Ecology
subject: FOS: Biological sciences
subject: 69999 Biological Sciences not elsewhere classified

description: Additional file 3: Figure S1. Boxplots of genomic relationships. Figure S2. Boxplots of observed heterozygosity.
Gobioides broussonnetii Lacepede 1800
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Gobioides
Gobioides broussonnetii

description: Gobioides broussonnetii Lacepède 1800. Violet Goby; Esmeralda de Rio, Gobio Violeta
Vouchers: Not available. Distribution: Western Atlantic Ocean; from Georgia, USA, to Rio Grande do Sul, Brazil; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) KP and Es (Atlantic); 0–5 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2019), population trend unknown. Literature: Villa (1982: 228; detailed description, including illustrations and an identification key, and information on distribution and ecology), Robertson & Van Tassell (2019: 4171; detailed description, including illustrations, and information on distribution, with a map, and ecology) and Angulo (2021: 37; listed, including information on distribution).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 37, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788
Notch regulation of cell fate decisions in the mammary gland
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Breast tumors are comprised of cells that express markers of either one or the other mammary epithelial lineages, with myoepithelial-type tumors tending to be more invasive and associated with poor prognosis, and luminal type tumors composing the majority of clinical cases. Preferential differentiation towards a particular phenotype suggests that perturbations in signaling pathways that guide stem/progenitor fate transitions to either phenotype occur during breast tumorigenesis. It is widely recognized that signaling pathways that govern normal cell/tissue development are often disrupted and/or altered during tumorigenesis. Thus, investigating molecular mechanisms underlying fate decisions of normal mammary cells often inform principles and pathways that may be dysregulated in breast cancer. There is intriguing data suggesting that Notch signals may direct progenitors to differentiate toward the myoepothelial lineage, and that disruption or modulation of Notch signaling may be involved in breast cancer biology. We postulate that inheritance of unequal levels of Numb, a Notch antagonist, will result in differential inhibition of Notch signaling after asymmetric division, which will direct cell fate decisions. The overall goal of our project is to increase understanding of the signaling pathways that regulate transitions between normal mammary gland stem/progenitors and the luminal and myoepithelial differentiated cell types. Specifically, we will test the hypotheses that 1. cell fate decisions after asymmetric division of mammary cells toward the myoepithelial or luminal lineages are regulated by levels of Notch signaling, 2. asymmetric inheritance of Numb affects the activity of the Notch signaling pathway in progenitors and differentiated cells in the mammary gland. 3. disruption of the cell polarity regulator Lgl affects Notch-mediated cell fate decisions in polarized mammary epithelial tissue by regulating Numb asymmetric localization. Data generated during the course of this project will establish the role of Notch signaling in cell fate determinations in the mammary gland, identify the spatial and molecular mechanisms underlying regulation of Notch signaling, and generate data for future studies to explore the role of Notch signaling in vivo in the fate decisions of normal mammary stem cells and stem cells in breast cancer.
Additional file 1: of Proangiogenic alginate-g-pyrrole hydrogel with decoupled control of mechanical rigidity and electrically conductivity
Creators: name: DeVolder, Ross
name: Yongbeom Seo
name: Hyunjoon Kong
Publisher: name: Figshare
Year: 2017
Subjects: subject: Biophysics
subject: Biochemistry
subject: Genetics
subject: FOS: Biological sciences
subject: Molecular Biology
subject: Biotechnology
subject: 69999 Biological Sciences not elsewhere classified
subject: 80699 Information Systems not elsewhere classified
subject: FOS: Computer and information sciences
subject: Marine Biology
subject: Science Policy

description: Supporting Information. (DOCX 618 kb)
Tracing Tumor Heterogeneity in Squamous Cell Carcinoma
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Squamous cell carcinoma (SCC) is a common form of skin cancers which results from mutagenesis caused by UV-Radiation, as a part of sun exposure. Numerous genetic mutations that lead to the appearance of SCCs have been identified and provided basis for the current anti-tumor approaches. However, despite rapid improvements in targeted drug discovery, tumor heterogeneity continues to thwart their translation into improved patient outcomes. This underlines the critical importance of understanding the mechanisms of SCC initiation and progression. Substantial heterogeneity observed within SCC tumors suggests two possible scenarios of its growth 1) tumors develop as the result of multiple independent subclones maintaining its growth as predicted by stochastic model of tumor formation, or 2) tumors are initiated and propagated by defined cellular subclone which gives rise to all the progeny lineages capable of accumulating additional mutations during tumor progression as predicted by hierarchical stem cell model. The goal of this project is to delineate between clonal and stochastic models of SCC formation and to define the critical mutations in the cell of origin for the UV-induced SCCs. To reach this goal my lab has established cellular and genetic mouse tracing model of spontaneous SCC formation in response to UV stimuli. These mice contain CK14_ACTNCRE_Brainbow transgene which harbors Cre-dependent four-color reporter construct coding for red, orange, green and blue fluorescent proteins (16 different spectra are possible) in all cells of their adult skin. Our experimental setup uses topical induction of Cre-recombinase activity to make every skin cell and all of its subsequent cellular progeny to randomly express only one color. We then expose these mice to UV protocol treatment to induce spontaneous SCC formation. Each arising SCC, classified by tissue specific markers, will consist either of a single color or a mosaic combination of all colors. Single color points to the existence of a tumorigenic cell population derived from a single stem-like cell/clone, while mosaic distribution of colored cell clones signifies a multi-clonal stochastic origin of this tumor. Single cell sequencing of each particular color containing population will then reveal unique spectrum of driver mutations and degree of their divergence depending on the stage of tumor progression.
Patterns of Care and Outcomes in AYAs with Germ Cell Tumors
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Germ cell tumors (GCT) are the third most common cancer in adolescent and young adult (AYA: 15-39 years) patients and its incidence is increasing. Survival has increased significantly over the past three decades; however, disparities by stage of disease, age and sociodemographic factors remain. AYA patients with GCTs do not receive uniform care, with providers varying from pediatric oncologists, medical oncologists, urologists, to gynecologists. They also may be treated in community hospitals or specialized cancer centers (SCC: Children’s Oncology Group and National Cancer Institute-designated centers). Treatment at SCCs or by pediatric oncologists has been found to improve outcomes in AYAs with certain cancers (i.e. acute lymphoblastic leukemia, Ewing sarcoma), possibly due to clinical trial enrollment and standardized care approaches, but these associations have not been assessed for AYA patients with GCTs. Most of what is known has been obtained through clinical trials, which while important, does not provide a complete “real world” picture of treatment, location of care and survival outcomes in this patient population. Therefore, we propose to undertake a comprehensive, population-based assessment using the California Cancer Registry (CCR) linked with statewide hospitalization data. This database captures information on nearly all patients with GCT in California—allowing us to determine patterns of care for AYA patients with GCTs. We aim to identify the treatment regimens administered and determine differences by location of cancer treatment and treating physician specialty; and examine the impact of guideline concordant care, location of care and treating physician specialty on survival. We hypothesize that guideline concordant treatment will differ by the treating specialty, especially in older AYAs, and that survival in patients with later stage disease will be superior if these patients are treated at SCCs and/or with guideline concordant care. We will accomplish these aims through the use of novel methods to abstract chemotherapy regimens (protocol, specific drugs), provider subspecialty (urology, oncology etc.) and surgical details (biopsy date, resection date, surgical margins) from text fields in the CCR. Findings from this study will identify potential areas for intervention that can improve survival outcomes in AYA patients with GCTs.
Profiling extracellular vesicles by single particle counting
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: Extracellular vesicles (EVs) secreted from tumor cells can promote tumor progression, survival, invasion and angiogenesis. Such EVs could be useful for sensitive and specific cancer diagnosis and prognosis, but their identification requires detailed molecular analysis of the EVs from different sources. Prior to analysis, the EVs are purified from biofluids using ultracentrifugation, chromatography, and polymeric precipitation. These techniques separate EVs based on their physical properties like size and density. However, physical properties are not able to distinguish EVs by their cells of origin or functions; and the EVs purified by the physical separation methods still contain heterogeneous population, enhancing the difficulty in obtaining the information specifically related to EV functions in cancer development. In addition, most physical separation methods are very time-consuming, result in low sample yield, and consume a lot of samples, not affordable by clinical practice. Methods that allow rapid, specific, and sensitive recognition of the EVs related to cancer development are in demand. We propose a simple strategy to enable single vesicle counting and detect multiple EV cargo in individual vesicles. Our proposed work will be focused on the EV class named exosomes, because their sizes are below the diffraction limit and they are difficult to be seen under microscope or in flow cytometer, although the proposed technique will be applicable to all other EV classes. Our long term goal is to reveal the specific exosome population that is closely correlated to cancer development. Such populations will lead to the discovery of more specific biomarkers for development of new diagnosis tools and treatments for cancers. The overall objective of this application is to differentiate individual exosomes based on their molecular signatures and identify the correlation between such signatures and their cell of origin, using conventional instruments deployable in typical clinics. Our central hypothesis is that EVs secreted by cells undergoing different stages of tumor development carry distinct molecular signatures recognizable by the single vesicle counting (SVC) technique to be developed. Thus, profiling the EV populations found in biofluids by SVC can clearly disclose cancer development and provide new understanding on EV functions in cancer development.
Cas adaptor proteins in cell migration and invasiveness
Creators: name: University Of California Office Of The President
Publisher: name: University of California Office of the President
publisherIdentifier: https://ror.org/00dmfq477
publisherIdentifierScheme: ROR
Year: 2024

description: We seek to determine the role of the Cas (Crk-Associated Substrate) family of cytosolic adaptor proteins during migration. Cas family members represent a signaling nexus on which integrin and growth factor receptor signaling converge. As a consequence, this family is implicated in key events in cancer cell biology such as initiation, progression and invasiveness. In particular, accumulating evidence suggests that Cas proteins play critical roles in migration and metastasis. Cas adaptors interact with various classes of signaling proteins and upon phosphorylation Cas proteins can provide docking sites for SH2-containing effectors including Crk, stimulating Rac1-mediated actin remodeling. Although Cas family members have well-characterized in vitro roles in adhesion and cell motility, the in vivo function of Cas proteins in cell migration remains poorly understood. Cortical lamination and stratification provide an exciting and highly tractable in vivo model to investigate the function of Cas proteins during cell migration. Along their radial migratory path, cortical neurons are guided by attractive and repulsive cues while simultaneously interacting with the extracellular matrix (ECM). This process involves the precise and timely regulation of adhesion and detachment of neurons from their substrate. Our Preliminary Data identify Cas adaptor proteins as central players of cortical lamination and migration. We recently found that Cas gene ablation results in severe cortical phenotypes that resemble cobblestone lissencephaly. This phenotype is characterized by ectopic clusters of neurons that migrate beyond the marginal zone and invade the subarachnoid space. We will use this model of aberrant migration to uncover the molecular mechanisms that regulate Cas-mediated cortical neuron migration and invasiveness. Our driving hypothesis is that modulation of Cas function plays essential roles during cortical migration by regulating adhesion. Aim 1 will identify protein residues necessary for Cas function during radial migration. Since modulation of Cas phosphorylation is known to be essential for focal adhesion turnover, Aim 2 will test whether regulation of Cas phosphorylation is required for cortical migration in vivo. The proposed studies will provide comprehensive mechanistic understanding of cell migration in vivo, as this pertains to invasiveness and metastasis.
Udeina pliskoae Zicsi 1998
Creators: name: Csuzdi, Csaba
name: Szederjesi, Tímea
name: Sherlock, Emma
Publisher: name: Zenodo
Year: 2018
Subjects: Biodiversity
Taxonomy
Animalia
Annelida
Clitellata
Opisthopora
Acanthodrilidae
Udeina
Udeina pliskoae

description: Udeina pliskoae Zicsi, 1998
Udeina pliskoae Zicsi, 1998a Mitt. Hamb. Zool. Mus. Inst. 95: 68.
description: Published as part of Csuzdi, Csaba, Szederjesi, Tímea & Sherlock, Emma, 2018, Annotated checklist of earthworm species described by András Zicsi (Clitellata: Megadrili), pp. 11-42 in Zootaxa 4496 (1) on page 14, DOI: 10.11646/zootaxa.4496.1.4, http://zenodo.org/record/1447011
Gobionellus microdon
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Gobionellus
Gobionellus microdon

description: Gobionellus microdon (Gilbert 1892). Estuary Goby, Palmtail Goby; Gobio Cola de Palma, Gobio Plateado
Vouchers: UCR 0270-004 (36) and 0272-006 (1); other collections: CAS 52016 (1), MCZ 30716 (1) and TCWC 249101 (2). Distribution: Eastern Pacific Ocean; from the Gulf of California, Mexico, to Ecuador; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) PN and Ni (Pacific); 0–8 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2019), population trend stable. Literature: Villa (1982: 229; detailed description, including illustrations and an identification key, and information on distribution and ecology), Robertson & Allen (2015: 2101; detailed description, including illustrations, and information on distribution, with a map, and ecology) and Angulo (2021: 37; listed, including information on distribution).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 37, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788
Spathosterninae Rehn 1957
Creators: name: Sultana, Riffat
name: Song, Hojun
Publisher: name: Zenodo
Year: 2024
Subjects: Biodiversity
Taxonomy
Animalia
Arthropoda
Insecta
Orthoptera
Acrididae

description: Spathosterninae Rehn, 1957
Tribe Spathosternini Rehn, 1957
Genus Spathosternum Krauss, 1877
162. Spathosternum prasiniferum (Walker, 1871
163. Spathosternum venulosum Stål, 1878
description: Published as part of Sultana, Riffat & Song, Hojun, 2024, Annotated catalogue of Pakistani Acrididae (Orthoptera: Caelifera: Acridoidea), pp. 1-47 in Zootaxa 5486 (1) on page 10, DOI: 10.11646/zootaxa.5486.1.1, http://zenodo.org/record/13209743
Lophogobius cyprinoides
Creators: name: Angulo, Arturo
name: Betts, Joel T.
name: González-Alemán, Néstor J.
name: Castañeda, Edgar
name: Berghe, Eric Van Den
name: Elías, Diego J.
name: Mcmahan, Caleb D.
name: Matamoros, Wilfredo A.
Publisher: name: Zenodo
Year: 2023
Subjects: Biodiversity
Taxonomy
Animalia
Chordata
Perciformes
Gobiidae
Lophogobius
Lophogobius cyprinoides

description: Lophogobius cyprinoides (Pallas 1770). Gobio Crestado del Atlántico, Gobio Gallo; Atlantic Crested-Goby
Vouchers: LSUMZ 15330 (6) and 15342 (1). Distribution: Western Atlantic Ocean; from southern Florida, USA, to Venezuela; entering estuaries and littoral lagoons and ascending river courses; (Nicaragua) UI and WK (Atlantic); 0–7 masl; Per, Dia, Amp. Occurrence and conservation status: Nat; LC (2015), population trend unknown. Literature: Robertson & Van Tassell (2019: 2534; detailed description, including illustrations, and information on distribution, with a map, and ecology).
description: Published as part of Angulo, Arturo, Betts, Joel T., González-Alemán, Néstor J., Castañeda, Edgar, Berghe, Eric Van Den, Elías, Diego J., Mcmahan, Caleb D. & Matamoros, Wilfredo A., 2023, Continental fishes of Nicaragua: diversity, distribution and conservation status; with an annotated and illustrated checklist of species and an identification guide to families, pp. 1-89 in Zootaxa 5376 (1) on page 37, DOI: 10.11646/zootaxa.5376.1.1, http://zenodo.org/record/10208788