Patch-based Convolutional Neural Network for Whole Slide Tissue Image Classification

Convolutional Neural Networks (CNN) are state-of-the-art models for many image classification tasks. However, to recognize cancer subtypes automatically, training a CNN on gigapixel resolution Whole Slide Tissue Images (WSI) is currently computationally impossible. The differentiation of cancer subtypes is based on cellular-level visual features observed on image patch scale. Therefore, we argue that in this situation, training a patch-level classifier on image patches will perform better than or similar to an image-level classifier. The challenge becomes how to intelligently combine patch-level classification results and model the fact that not all patches will be discriminative. We propose to train a decision fusion model to aggregate patch-level predictions given by patch-level CNNs, which to the best of our knowledge has not been shown before. Furthermore, we formulate a novel Expectation-Maximization (EM) based method that automatically locates discriminative patches robustly by utilizing the spatial relationships of patches. We apply our method to the classification of glioma and non-small-cell lung carcinoma cases into subtypes. The classification accuracy of our method is similar to the inter-observer agreement between pathologists. Although it is impossible to train CNNs on WSIs, we experimentally demonstrate using a comparable non-cancer dataset of smaller images that a patch-based CNN can outperform an image-based CNN

The Hypanis Valles delta: The last highstand of a sea on early Mars?

One of the most contentious hypotheses in the geological history of Mars is whether the northern lowlands ever contained an oceanic water body. Arguably, the best evidence for an ocean comes from the presence of sedimentary fans around Mars' dichotomy boundary, which separates the northern lowlands from the southern highlands. Here we describe the palaeogeomorphology of the Hypanis Valles sediment fan, the largest sediment fan complex reported on Mars (area >970 km2). This has an extensive catchment (4.6 x 105 km2) incorporating Hypanis and Nanedi Valles, that we show was active during the late-Noachian/early-Hesperian period (∼3.7 Ga). The fan comprises a series of lobe-shaped sediment bodies, connected by multiple bifurcating flat-topped ridges. We interpret the latter as former fluvial channel belts now preserved in inverted relief. Meter-scale-thick, sub-horizontal layers that are continuous over tens of kilometres are visible in scarps and the inverted channel margins. The inverted channel branches and lobes are observed to occur up to at least 140 km from the outlet of Hypanis Valles and descend ∼500 m in elevation. The progressive basinward advance of the channellobe transition records deposition and avulsion at the margin of a retreating standing body of water, assuming the elevation of the northern plains basin floor is stable. We interpret the Hypanis sediment fan to represent an ancient delta as opposed to a fluvial fan system. At its location at the dichotomy boundary, the Hypanis Valles fan system is topographically open to Chryse Planitia – an extensive plain that opens in turn into the larger northern lowlands basin. We conclude that the observed progradation of fan bodies was due to basinward shoreline retreat of an ancient body of water which extended across at least Chryse Planitia. Given the open topography, it is plausible that the Hypanis fan system records the existence, last highstand, and retreat of a large sea in Chryse Planitia and perhaps even an ocean that filled the northern plains of Mars

Dual encoding of muscle tension and eye position by abducens motoneurons

Extraocular muscle tension associated with spontaneous eye movements has a pulse-slide-step profile similar to that of motoneuron firing rate. Existing models only relate motoneuron firing to eye position, velocity and acceleration. We measured and quantitatively compared lateral rectus muscle force and eye position with the firing of abducens motoneurons in the cat to determine fundamental encoding correlations. During fixations (step), muscle force increased exponentially with eccentric eye position, consistent with a model of estimate ensemble motor innervation based on neuronal sensitivities and recruitment order. Moreover, firing rate in all motoneurons tested was better related to eye position than to muscle tension during fixations. In contrast, during the postsaccadic slide phase, the time constant of firing rate decay was closely related to that of muscle force decay, suggesting that all motoneurons encode muscle tension as well. Discharge characteristics of abducens motoneurons formed overlapping clusters of phasic and tonic motoneurons, thus, tonic units recruited earlier and had a larger slide signal. We conclude that the slide signal is a discharge characteristic of the motoneuron that controls muscle tension during the postsaccadic phase and that motoneurons are specialized for both tension and position-related properties. The organization of signal content in the pool of abducens motoneurons from the very phasic to the very tonic units is possibly a result of the differential trophic background received from distinct types of muscle fibers

“What if There's Something Wrong with Her?”‐How Biomedical Technologies Contribute to Epistemic Injustice in Healthcare

While there is a steadily growing literature on epistemic injustice in healthcare, there are few discussions of the role that biomedical technologies play in harming patients in their capacity as knowers. Through an analysis of newborn and pediatric genetic and genomic sequencing technologies (GSTs), I argue that biomedical technologies can lead to epistemic injustice through two primary pathways: epistemic capture and value partitioning. I close by discussing the larger ethical and political context of critical analyses of GSTs and their broader implications for just and equitable healthcare delivery

Structural requirements for protection by small amino acids against hypoxic injury in kidney proximal tubules1

Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/154313/1/fsb2004015011.pd

A Diverse Array of Fluvial Depositional Systems in Arabia Terra: Evidence for mid‐Noachian to Early Hesperian Rivers on Mars

Branching to sinuous ridges systems, 100s of kilometers in length and comprising layered strata, are present across much of Arabia Terra, Mars. These ridges are interpreted as depositional fluvial channels, now preserved as inverted topography. Here we use high resolution image and topographic datasets to investigate the morphology of these depositional systems and show key examples of their relationships to associated fluvial landforms. The inverted channel systems likely comprise indurated conglomerate, sandstone, and mudstone bodies, which form a multi‐storey channel stratigraphy. The channel systems intersect local basins and indurated sedimentary mounds, that we interpret as paleolake deposits. Some inverted channels are located within erosional valley networks, which have regional and local catchments. Inverted channels are typically found in downslope sections of valley networks, sometimes at the margins of basins, and numerous different transition morphologies are observed. These relationships indicate a complex history of erosion and deposition, possibly controlled by changes in water or sediment flux, or base level variation. Other inverted channel systems have no clear preserved catchment; likely lost due to regional resurfacing of upland areas. Sediment may have been transported through Arabia Terra towards the dichotomy and stored in local and regional‐scale basins. Regional stratigraphic relations suggest these systems were active between the mid‐Noachian and early Hesperian. The morphology of these systems is supportive of an early Mars climate which was characterized by prolonged precipitation and runoff

Calcium compartmentation in isolated renal tubules in suspension

Substantial increases of total cell Ca2+ have been observed in suspensions of isolated rabbit proximal tubules subjected to hypoxic injury or treated with exogenous ATP followed by apparent recovery with reoxygenation of the hypoxic tubules or continued incubation of ATP-treated tubules. Ca2+ compartmentation studies using digitonin and metabolic inhibitors were done to clarify the basis for these changes. Digitonin, 40-90 [mu]g/mg tubule protein, rapidly permeabilized the tubule cells and did not impair mitochondrial Ca2+ sequestration. Most of the increases of tubule cell Ca2+ produced by hypoxia and ATP were accounted for by pools which could be rapidly removed by exposure of tubules to EGTA and the uncoupler carbonyl cyanide m-chlorophenyl hydrazone without concomitant use of digitonin, suggesting that the changes of Ca2+ predominantly reflect sequestration by mitochondria in severely damaged cells or mitochondria already released to the medium from them. The time course of uptake followed by spontaneous release of mitochondrial Ca2+ from tubule cells deliberately permeabilized with digitonin, then incubated for prolonged periods, indicated that the decreases of tubule cell Ca2+ during reoxygenation of hypoxic suspensions and prolonged incubation of ATP-treated tubules were likely to be attributable to loss of Ca2+ from free mitochondria and those in damaged cells rather than to extrusion by intact cells.Peer Reviewedhttp://deepblue.lib.umich.edu/bitstream/2027.42/27353/1/0000378.pd

The Ursinus Weekly, November 11, 1977

Task force in gear • The Medical Credentials Committee • Financial aid simplified • 16 selected for Who\u27s who • After graduation • Ursinus news in brief: Ruby sellout; New Library service • Comment: Take a risk • Letters to the editor • Movie attack: Exorcist two; You light up my life; The Island of Dr. Moreau • Comment on the arts • Art and loneliness III • On killing blank space • Andy Campbell • Women\u27s volleyball • Hockey wins • Bears edge Widener • 3 & 4 score morehttps://digitalcommons.ursinus.edu/weekly/1076/thumbnail.jp