Single-cell and spatial atlases of spinal cord injury in the Tabulae Paralytica.

Here, we introduce the Tabulae Paralytica-a compilation of four atlases of spinal cord injury (SCI) comprising a single-nucleus transcriptome atlas of half a million cells, a multiome atlas pairing transcriptomic and epigenomic measurements within the same nuclei, and two spatial transcriptomic atlases of the injured spinal cord spanning four spatial and temporal dimensions. We integrated these atlases into a common framework to dissect the molecular logic that governs the responses to injury within the spinal cord1. The Tabulae Paralytica uncovered new biological principles that dictate the consequences of SCI, including conserved and divergent neuronal responses to injury; the priming of specific neuronal subpopulations to upregulate circuit-reorganizing programs after injury; an inverse relationship between neuronal stress responses and the activation of circuit reorganization programs; the necessity of re-establishing a tripartite neuroprotective barrier between immune-privileged and extra-neural environments after SCI and a failure to form this barrier in old mice. We leveraged the Tabulae Paralytica to develop a rejuvenative gene therapy that re-established this tripartite barrier, and restored the natural recovery of walking after paralysis in old mice. The Tabulae Paralytica provides a window into the pathobiology of SCI, while establishing a framework for integrating multimodal, genome-scale measurements in four dimensions to study biology and medicine.

Anatomy's missing faces: An assessment of representation gaps in atlas and textbook imagery.

Previous research suggests that underrepresentation in medical curricula perpetuates inequities in healthcare. This study aimed to quantify the prevalence of human phenotypic diversity (e.g., skin tone, sex, body size, and age) across 11 commonly used anatomy atlases and textbooks in pre-clerkship medical education, published from 2015 to 2020. A systematic visual content analysis was conducted on 5001 images in which at least one phenotypic attribute was quantifiable. Anatomy images most prevalently portrayed light skin tones, males, persons with intermediate body sizes, and young to middle-aged adults. Of the 3883 images in which there was a codable skin tone, 81.2% (n = 3154) depicted light, 14.3% (n = 554) depicted intermediate, and 4.5% (n = 175) depicted dark skin tones. Of the 2384 images that could be categorized into a sex binary, 38.4% (n = 915) depicted females and 61.6% (n = 1469) depicted males. A male bias persisted across all whole-body and regional-body images, including those showing sex organs or those showing characteristics commonly associated with a specific sex (e.g. for males, facial hair and/or muscle hypertrophy). Within sex-specific contexts, darker skin was underrepresented, but male depictions displayed greater overall skin tone variation. Although most images could not be assigned to a body size or age category, when codable, these images overwhelmingly depicted adults (85.0%; 482 of 567) with smaller (34.7%; 93 of 268) or intermediate (64.6%; 173 of 268) body sizes. Ultimately, these outcomes provide reference metrics for monitoring ongoing and future efforts to address representation inequalities portrayed in anatomical imagery.

Origin of Lee Quedae's Knowledge of Artistic Anatomy.

Art in medicine, especially in anatomy, is the creative expression of the structural form of life, specifically life as manifested in human anatomy. Artists and anatomists together produced images of the body that combined medical knowledge and an artistic vision. In Korea, the pioneer of artistic anatomy was Lee Quede (1913-1965). During the Korean War (1950-1953), in the Geoje prisoner of war camp, he produced anatomical drawings and notes about the human body to teach artistic anatomy to his fellow refugee Lee Ju-yeong. Human anatomy, physiognomic differences among races, and phrenology are explained in those drawings. His drawing notes relied upon his own memories of what he had learned at Teikoku Art School in Japan, where he obtained knowledge on artistic anatomy from Nishida Masaaki (1894-1961). Seventy-four drawings and their explanations were produced. The table of contents was ordered starting from body proportions, followed by the skeleton, the muscles, and the head. The essential forms, proportions and movement were included. In École Supérieur des Beaux Arts in France, Kume Geichiro (1866-1934) was a pupil of Mathias Duval (1844-1907) and Paul Richer (1849-1933). In Teikoku Art School, Kume lectured on art anatomy using the books written by Duval and Richer. Kume handed over his lectures to Nishida, and Lee Quede learned from Nishida. Thereafter, Lee Quede's anatomical knowledge was based on the French artistic anatomy of the 19th century, succeeded by Kume and Nishida. Lee Quede's drawing notes are valuable documents for assessing the influence of Japanese artistic anatomy on Korean artistic anatomy.

Visual assessment of the placenta in antenatal magnetic resonance imaging across gestation in normal and compromised pregnancies: Observations from a large cohort study.

INTRODUCTION: Visual assessment of the placenta in antenatal magnetic resonance imaging is important to confirm healthy appearances or to identify pathology complicating fetal anomaly or maternal disease. METHODS: We assessed the placenta in a large cohort of 228 women with low and high risk pregnancies across gestation. All women gave written informed consent and were imaged using either a 3T Philips Achieva or 1.5T Philips Ingenia scanner. Images were acquired with a T2-weighted single shot turbo spin echo sequence of the whole uterus (thereby including placenta) for anatomical information. RESULTS: A structured approach to visual assessment of the placenta on T2-weighted imaging has been provided including determination of key anatomical landmarks to aid orientation, placental shape, signal intensity, lobularity and granularity. Transient factors affecting imaging are shown including the effect of fetal movement, gross fetal motion and contractions. Placental appearances across gestation in low risk pregnancies are shown and compared to pregnancies complicated by preeclampsia and chronic hypertension. The utility of other magnetic resonance techniques (T2* mapping as an indirect marker for quantifying oxygenation) and histological assessment alongside visual assessment of placental T2-weighted imaging are demonstrated. DISCUSSION: A systematic approach with qualitative descriptors for placental visual assessment using T2-weighted imaging allows confirmation of normal placental development and can detect placental abnormalities in pregnancy complications. T2-weighted imaging can be visually assessed alongside functional imaging (such as T2* maps) in order to further probe the visual characteristics seen.

Constructing the rodent stereotaxic brain atlas: a survey.

The stereotaxic brain atlas is a fundamental reference tool commonly used in the field of neuroscience. Here we provide a brief history of brain atlas development and clarify three key conceptual elements of stereotaxic brain atlasing: brain image, atlas, and stereotaxis. We also refine four technical indices for evaluating the construction of atlases: the quality of staining and labeling, the granularity of delineation, spatial resolution, and the precision of spatial location and orientation. Additionally, we discuss state-of-the-art technologies and their trends in the fields of image acquisition, stereotaxic coordinate construction, image processing, anatomical structure recognition, and publishing: the procedures of brain atlas illustration. We believe that the use of single-cell resolution and micron-level location precision will become a future trend in the study of the stereotaxic brain atlas, which will greatly benefit the development of neuroscience.

Poder, patriarcado e (r)existência: notas sobre uma experiência sensível e crítica entre mulheres na academia / Power, patriarchy and (r)existence: notes on a sensitive and critical experience among women in the academy / Poder, patriarcado y (r)existencia: notas sobre una experiencia sensible y crítica entre las mujeres en la academia

Neste artigo são apresentados processos, materialidades e reflexões que envolvem a criação de uma instalação artística, desenvolvida pelas autoras do trabalho provocadas pelos silenciamentos que marcam corpos plurais. As autoras foram mobilizadas pela intencionalidade do exercício de "colocar corpo" para a ação constante de des(colonizar)patriarcalizar a si mesmas e a vida, e pelo desejo de criar na conexão entre mulheres. A obra foi alicerçada com base em suas histórias e narrativas, por meio da materialidade expressa nos elementos visuais incorporados às peças da instalação, com o objetivo de questionar as violências visíveis e invisíveis advindas de processos hegemônicos de poder e de dominação do patriarcado, do colonialismo e do capitalismo neoliberal. O convite é para a experimentação e a fruição de alguns tensionamentos e expressões que refletem formas possíveis de (r)existência.(AU)

In this article, processes, materialities and reflections involving the creation of an artistic installation are presented, developed by the authors of the work caused by the silencing that mark plural bodies. The authors were mobilized by the intentionality to exercise "giving body" to the constant action of de(colonizing) patriarchalize themselves and life itself, and by the desire to create in the connection among women. The manuscript was based on its stories and narratives, through the materiality expressed in the visual elements incorporated into the installation's pieces, with the objective of questioning the visible and invisible violence arising from hegemonic processes of power and domination of patriarchy, colonialism and neoliberal capitalism. The invitation is to experiment and enjoy some tensions and expressions that reflect possible forms of (r)existence.(AU)

En este artículo son presentados procesos, materialidades y reflexiones que involucran la creación de una instalación artística, desarrollada por las autoras, provocadas por los silenciamientos que marcan cuerpos plurales. Las autoras se movilizaron con la intención del ejercicio de "poner cuerpo" para la acción constante de des(colonizar)patriarcalizar a sí mismos y a la vida, y con deseos de crear desde la conexión entre mujeres. La obra se basó en sus historias y narrativas, a través de la materialidad expresada en los elementos visuales incorporados en las piezas de la instalación, con en lo objetivo de cuestionar las violencias visibles e invisibles resultante de los procesos hegemónicos de poder y dominación del patriarcado, del colonialismo y del capitalismo neoliberal. La invitación es a experimentar y disfrutar de algunas tensiones y expresiones que reflejan posibles formas de (r)existencia.(AU)

Science, Anatomy, and Art: Revisiting Leonardo da Vinci, Pioneer of Modern Anatomy.

BACKGROUND: Leonardo da Vinci, the artist and scientist, was an archetype figure of the Renaissance era. He was an autodidactic polymath in natural sciences, engineering, and physical sciences, imbued with universality, prodigious inventive imagination, and curiosity to know and understand the world around him. Among his myriad activities, anatomy, physiology, and biomechanics of the musculoskeletal system and the underlying systems fully engaged him. Leonardo dissected dozens of human and animal corpses to study. His anatomical illustrations were precise, combining art and science with an impeccable integration of both. Multiple drawings, diagrams, sketches, and designs are found in his notes. Leonardo's style was intensely personal, unveiling his thoughts, passions, and emotions. We analyzed significant biographic aspects of Leonardo's life, remarking on his scientific and life conceptions and their manifestation in his anatomical designs. The contribution of preceding anatomists is reported as a source of his inspiration as well as motivation to successors. Leonardo da Vinci left no publications, but rather an extensive collection of personal notebooks. Leonardo's contribution to modern anatomy was enormous and he is considered by the scientific and medical community as the father of the modern anatomy.

3D Atlas of the Pituitary Gland of the Model Fish Medaka (Oryzias latipes).

In vertebrates, the anterior pituitary plays a crucial role in regulating several essential physiological processes via the secretion of at least seven peptide hormones by different endocrine cell types. Comparative and comprehensive knowledge of the spatial distribution of those endocrine cell types is required to better understand their physiological functions. Using medaka as a model and several combinations of multi-color fluorescence in situ hybridization, we present the first 3D atlas revealing the gland-wide distribution of seven endocrine cell populations: lactotropes, thyrotropes, Lh and Fsh gonadotropes, somatotropes, and pomca-expressing cells (corticotropes and melanotropes) in the anterior pituitary of a teleost fish. By combining in situ hybridization and immunofluorescence techniques, we deciphered the location of corticotropes and melanotropes within the pomca-expressing cell population. The 3D localization approach reveals sexual dimorphism of tshba-, pomca-, and lhb-expressing cells in the adult medaka pituitary. Finally, we show the existence of bi-hormonal cells co-expressing lhb-fshb, fshb-tshba and lhb-sl using single-cell transcriptomics analysis and in situ hybridization. This study offers a solid basis for future comparative studies of the teleost pituitary and its functional plasticity.

Charting human development using a multi-endodermal organ atlas and organoid models.

Organs are composed of diverse cell types that traverse transient states during organogenesis. To interrogate this diversity during human development, we generate a single-cell transcriptome atlas from multiple developing endodermal organs of the respiratory and gastrointestinal tract. We illuminate cell states, transcription factors, and organ-specific epithelial stem cell and mesenchyme interactions across lineages. We implement the atlas as a high-dimensional search space to benchmark human pluripotent stem cell (hPSC)-derived intestinal organoids (HIOs) under multiple culture conditions. We show that HIOs recapitulate reference cell states and use HIOs to reconstruct the molecular dynamics of intestinal epithelium and mesenchyme emergence. We show that the mesenchyme-derived niche cue NRG1 enhances intestinal stem cell maturation in vitro and that the homeobox transcription factor CDX2 is required for regionalization of intestinal epithelium and mesenchyme in humans. This work combines cell atlases and organoid technologies to understand how human organ development is orchestrated.

The devil is in the details: developing a modern methodology for detailed medical illustrations.

The Pernkopf Atlas has posed an ethical dilemma for the past 30 years. Although its illustrations are of an indisputably high quality, its unethical origins yield questions with its use. This study aimed to identify successful methods for creating equal if not higher quality anatomical visualisations through an analysis and comparison of past and present medical illustrator's techniques. Pernkopf's illustrations were not used as an anatomical reference to ensure the new visuals were ethical; instead other existing visuals and written sources were compiled and reviewed to create an original 3D model of the posterior cervical triangle using ZBrush 2020. Some visualisation techniques used by Pernkopf were used as a part of this project (i.e. rendering in partial colour) this technique is not unique to Pernkopf and was also used by Henry Carter, the illustrator of Grey's anatomy. The survey was distributed to 78 participants with a strong anatomical or medical/biological art background. The reception to the new resource was positive; participants favoured it in terms of quality and ease of understanding. However, participants noted that the images in the survey were not the same resolution which may have skewed the results in favour of the new image. When rated for detail compared to the Pernkopf Atlas, the number of structures in the resource need to be increased before it can be ranked equally to the Pernkopf Atlas for detail. Participants did note that they may have selected differently depending on what was inferred by quality and detail in the survey.

The Visible Ape Project: A free, comprehensive, web-based anatomical atlas for scientists and veterinarians designed to raise public awareness about apes.

The Visible Ape Project (VAP) is a free online platform providing unprecedented access to a suite of resources designed to comprehensively illustrate and educate about the anatomy of our closest relatives, the apes. It contains photographs, magnetic resonance images, and computed tomography scans, as well as three-dimensional models that can be manipulated to explore homologies and variations in soft and hard tissues in hylobatids, orangutans, gorillas, chimpanzees, and bonobos. Based at Howard University, a historically black university, it aims to reach communities underrepresented in anthropology and evolutionary biology, providing educational materials appropriate for K-12 and college classrooms in both English and Spanish. Accordingly, VAP incorporates outreach activities to disseminate science and promote awareness of apes, forming partnerships with veterinarians and conservationists in Africa and Asia. In this paper, we present an introduction to the website to illustrate how this accessible, evolving resource can support evolutionary anthropology and related disciplines.

The Medical University of Vienna and the legacy of Pernkopf's anatomical atlas: Elsevier's donation of the original drawings to the Josephinum.

Eduard Pernkopf (1888-1955) became head of the Second Anatomical Institute in 1933, dean of the medical faculty in 1938 with the Annexation of Austria into Nazi Germany, and rector of the University of Vienna in 1943. He gained worldwide recognition with his anatomical atlas, which many consider unequaled to this day. In the decades that followed, suspicion arose that the drawings were made using corpses of people who had been victims of Nazi persecution and, following international inquiries and critique, the University of Vienna appointed a historical commission to the matter. The commission published its results in 1998, concluding that anatomical specimens used for the illustrations in Pernkopf's atlas had in all likelihood been made using corpses of victims of the Nazi judicial system. In total, the Anatomical Institute received the corpses of at least 1377 executed people, including many members of the anti-Nazi resistance. Through the acquisition of Pernkopf's original publisher Urban & Schwarzenberg in 2003, the original drawings and the publishing rights went to Elsevier. While existing copies of Pernkopf's Anatomy remain in use, printing or licensing of the atlas or its illustrations were stopped in 1994, inducing an effective ban on publishing the illustrations in other contexts, for example in works dealing with history and ethics of anatomy. In December 2019, Elsevier donated the remaining original drawings and proofs to the Medical University of Vienna, ensuring that these returned to the institution where they originated. They are now part of the university's historical collections held at the Josephinum. Moreover, the transfer of the originals to Vienna ensures appropriate archiving and conservation, cataloging and digitization, as well as access to the illustrations for historical and related research.

Hysterosalpingography findings of leiomyomas and how they look in artistic eyes: new diagnostic signs.

Leiomyomas are benign lesions of the uterine smooth muscles that contain various amounts of fibrous connective tissue. Hystrosalpingography is not a method of diagnosing uterine fibroids, and other methods such as ultrasound and MRI are preferred, but during hystrosalpingography, especially in infertile females, uterine fibroids may be seen frequently. Leiomyomas have a wide range of appearances depending on their number, size and location. Leiomyomas may enlarge, elongate, displace, distort or rotate the uterine cavity and can be detected by such changes showing in hysterosalpingograms. These changes may be symmetric or asymmetric. Leiomyomas may result in uterine atony which can be locolized or generalized. Leiomyomas also may appear as one or multiple filling defects in different sizes which can be smooth or irregular. Some of the noted findings may create similar and frequent appearances looking like some patterns in nature and can be considered "excellent signs" for better detecting and enabling differential diagnosis. This study aims to improve the process of training on the diagnostic appearances of leiomyomas in hysterosalpingography by aligning the images with patterns found in nature that can be easily remembered by radiologists.

Neuronal diversity and convergence in a visual system developmental atlas.

Deciphering how neuronal diversity is established and maintained requires a detailed knowledge of neuronal gene expression throughout development. In contrast to mammalian brains1,2, the large neuronal diversity of the Drosophila optic lobe3 and its connectome4-6 are almost completely characterized. However, a molecular characterization of this neuronal diversity, particularly during development, has been lacking. Here we present insights into brain development through a nearly complete description of the transcriptomic diversity of the optic lobes of Drosophila. We acquired the transcriptome of 275,000 single cells at adult and at five pupal stages, and built a machine-learning framework to assign them to almost 200 cell types at all time points during development. We discovered two large neuronal populations that wrap neuropils during development but die just before adulthood, as well as neuronal subtypes that partition dorsal and ventral visual circuits by differential Wnt signalling throughout development. Moreover, we show that the transcriptomes of neurons that are of the same type but are produced days apart become synchronized shortly after their production. During synaptogenesis we also resolved neuronal subtypes that, although differing greatly in morphology and connectivity, converge to indistinguishable transcriptomic profiles in adults. Our datasets almost completely account for the known neuronal diversity of the Drosophila optic lobes, and serve as a paradigm to understand brain development across species.

Evolution of Human Brain Atlases in Terms of Content, Applications, Functionality, and Availability.

Human brain atlases have been evolving tremendously, propelled recently by brain big projects, and driven by sophisticated imaging techniques, advanced brain mapping methods, vast data, analytical strategies, and powerful computing. We overview here this evolution in four categories: content, applications, functionality, and availability, in contrast to other works limited mostly to content. Four atlas generations are distinguished: early cortical maps, print stereotactic atlases, early digital atlases, and advanced brain atlas platforms, and 5 avenues in electronic atlases spanning the last two generations. Content-wise, new electronic atlases are categorized into eight groups considering their scope, parcellation, modality, plurality, scale, ethnicity, abnormality, and a mixture of them. Atlas content developments in these groups are heading in 23 various directions. Application-wise, we overview atlases in neuroeducation, research, and clinics, including stereotactic and functional neurosurgery, neuroradiology, neurology, and stroke. Functionality-wise, tools and functionalities are addressed for atlas creation, navigation, individualization, enabling operations, and application-specific. Availability is discussed in media and platforms, ranging from mobile solutions to leading-edge supercomputers, with three accessibility levels. The major application-wise shift has been from research to clinical practice, particularly in stereotactic and functional neurosurgery, although clinical applications are still lagging behind the atlas content progress. Atlas functionality also has been relatively neglected until recently, as the management of brain data explosion requires powerful tools. We suggest that the future human brain atlas-related research and development activities shall be founded on and benefit from a standard framework containing the core virtual brain model cum the brain atlas platform general architecture.

From Ancient Texts to Digital Imagery: A Brief History on the Evolution of Anatomic Illustrations.

In a time when social isolation heavily relies on the use of digital representation, photography, and e-books, it is easy to take for granted the impact imagery has on our society and the pedagogical purposes of illustration, particularly in the teaching of surgery. Illustrations after all are the basis of all anatomical atlases and are quintessential tools that allow for an expedient and thorough understanding of concepts underlying the fabric of the human body. Yet, surgery has not always been taught with an atlas. Illustrations, much like surgery, have seen an incredible transformative process spanning across the ages to achieve their status in modern medicine. Through this brief review, we will not only glean an understanding of the evolution of anatomical illustrations but also the social context in which surgery has also evolved throughout history.