Genomic, Pathway Network, and Immunologic Features Distinguishing Squamous Carcinomas

This integrated, multiplatform PanCancer Atlas study co-mapped and identified distinguishing molecular features of squamous cell carcinomas (SCCs) from five sites associated with smokin

Comprehensive and Integrated Genomic Characterization of Adult Soft Tissue Sarcomas

Sarcomas are a broad family of mesenchymal malignancies exhibiting remarkable histologic diversity. We describe the multi-platform molecular landscape of 206 adult soft tissue sarcomas representing 6 major types. Along with novel insights into the biology of individual sarcoma types, we report three overarching findings: (1) unlike most epithelial malignancies, these sarcomas (excepting synovial sarcoma) are characterized predominantly by copy-number changes, with low mutational loads and only a few genes (, , ) highly recurrently mutated across sarcoma types; (2) within sarcoma types, genomic and regulomic diversity of driver pathways defines molecular subtypes associated with patient outcome; and (3) the immune microenvironment, inferred from DNA methylation and mRNA profiles, associates with outcome and may inform clinical trials of immune checkpoint inhibitors. Overall, this large-scale analysis reveals previously unappreciated sarcoma-type-specific changes in copy number, methylation, RNA, and protein, providing insights into refining sarcoma therapy and relationships to other cancer types

Multiplatform Analysis of 12 Cancer Types Reveals Molecular Classification within and across Tissues of Origin

Recent genomic analyses of pathologically-defined tumor types identify “within-a-tissue” disease subtypes. However, the extent to which genomic signatures are shared across tissues is still unclear. We performed an integrative analysis using five genome-wide platforms and one proteomic platform on 3,527 specimens from 12 cancer types, revealing a unified classification into 11 major subtypes. Five subtypes were nearly identical to their tissue-of-origin counterparts, but several distinct cancer types were found to converge into common subtypes. Lung squamous, head & neck, and a subset of bladder cancers coalesced into one subtype typified by TP53 alterations, TP63 amplifications, and high expression of immune and proliferation pathway genes. Of note, bladder cancers split into three pan-cancer subtypes. The multi-platform classification, while correlated with tissue-of-origin, provides independent information for predicting clinical outcomes. All datasets are available for data-mining from a unified resource to support further biological discoveries and insights into novel therapeutic strategies

Kathy Acker and Jackson Mac Low: the Reader\u27s Relationship to a Difficult Text

Senior Project submitted to The Division of Languages and Literature of Bard College

Invertebrate settlement and diversity on a glass sponge reef

Glass sponge reefs are an ecosystem unique to the continental shelf of the northeast Pacific Ocean. Due to their vulnerability and limited distribution, several sponge reef protection initiatives exist within Canadian waters with the common goal of conserving biodiversity. To date, the biodiversity associated with sponge reefs has largely been assessed using remote video methods that allow us to describe large fauna associated with the reefs. However, small organisms are typically missed, resulting in an underestimate of reef-associated biodiversity. In this study we aimed to further describe invertebrate biodiversity associated with sponge reefs. Sponge reefs recently discovered in Howe Sound, British Columbia are within safe recreational SCUBA diving limits allowing us to examine macrofaunal settlement timing and community structure using diver-deployed settlement plates. We examined the effect of settlement plate material and elevation above the benthos within the reef on invertebrate community structure. A total of 70 taxa settled on the plates representing 10 phyla, including two phyla not previously described on sponge reefs: Nemertea (ribbon worms) and Platyhelminthes (flatworms). There were no significant differences in taxa richness, diversity, or community structure associated with settlement plate material or height above the benthos. Ours is the first report of invertebrate settlement on a sponge reef in the Salish Sea and the first description of larval settlement timing for nine invertebrate species in the northeast Pacific

Epitomapta Heding 1928

<p>Genus Epitomapta Heding, 1928</p> <p>Diagnosis.</p> <p>Tentacles pinnate, usually 12. Digits in 2-5 pairs on each side (rarely two or none). Sense organs never in form of pigment-eyes, but as minute cups on inner face of stalk of tentacles. Calcareous ring well developed. Radial pieces not perforated for passage of nerves, but with an anterior notch. Cartilaginous ring absent. Polian vesicle usually single. Stone canal single, unbranched. Ciliated funnels of different shapes and attached to body wall, not to mesenteries. Calcareous deposits in body wall are anchors, anchor plates and miliary granules; tentacles with rods only. Stock of anchors finely toothed, but not branched; arms usually with teeth on outer edge; vertex smooth. Anchor plates oval, with large central hole, surrounded by six large holes, usually more or less dentate, and two large and several small smooth holes at narrow posterior end, but without an arched bow crossing outer surface; broad end often with additional dentate holes (Solís-Marín et al. 2019).</p> <p>Type species.</p> <p> <i>Epitomapta tabogae</i> Heding, 1928 by original designation.</p>Published as part of <i>Solis-Marin, Francisco Alonso, Conejeros-Vargas, Carlos Andres, Caballero-Ochoa, Andrea Alejandra & Byers, Sheila Colleen, 2023, Epitomapta aumakua sp. nov., a new species of apodous sea cucumber from Hawai'i (Echinodermata, Holothuroidea, Apodida), pp. 73-80 in ZooKeys 1183</i> on page 73, DOI: 10.3897/zookeys.1183.11162

Epitomapta Heding 1928

<p>Subfamily Leptosynaptinae Smirnov, 1989</p> <p>Diagnosis.</p> <p>Pinnate tentacles 10, 11 or 12, with 1-9 digits on each side. Digits increase in size from base to tip of tentacle. Anchor plate develops from a rod which lies at a right angle to stock of developing anchor. Anchor plates with small number of holes, usually seven (6+1) in main part of the plate: six holes form a circle around a central hole. Articular end of plate usually has a “ledge” for contact with anchor keel. Anchor arms regularly serrated, rarely smooth, and without minute knobs on the vertex (Heding 1928; Smirnov 1989).</p>Published as part of <i>Solis-Marin, Francisco Alonso, Conejeros-Vargas, Carlos Andres, Caballero-Ochoa, Andrea Alejandra & Byers, Sheila Colleen, 2023, Epitomapta aumakua sp. nov., a new species of apodous sea cucumber from Hawai'i (Echinodermata, Holothuroidea, Apodida), pp. 73-80 in ZooKeys 1183</i> on page 73, DOI: 10.3897/zookeys.1183.11162