Search Results - "Tissue Array Analysis - methods"

Simultaneous epitope and transcriptome measurement in single cells by Stoeckius, Marlon, Hafemeister, Christoph, Stephenson, William, Houck-Loomis, Brian, Chattopadhyay, Pratip K, Swerdlow, Harold, Satija, Rahul, Smibert, Peter

“…Using established high-throughput single-cell RNA-seq platforms, CITE-seq combines highly multiplexed, antibody-based protein marker quantification with…”
Get full text

Automated Gleason grading of prostate cancer tissue microarrays via deep learning by Arvaniti, Eirini, Fricker, Kim S., Moret, Michael, Rupp, Niels, Hermanns, Thomas, Fankhauser, Christian, Wey, Norbert, Wild, Peter J., Rüschoff, Jan H., Claassen, Manfred

“…The Gleason grading system remains the most powerful prognostic predictor for patients with prostate cancer since the 1960s. Its application requires…”
Get full text

Data-analysis strategies for image-based cell profiling by Caicedo, Juan C, Cooper, Sam, Heigwer, Florian, Warchal, Scott, Qiu, Peng, Molnar, Csaba, Vasilevich, Aliaksei S, Barry, Joseph D, Bansal, Harmanjit Singh, Kraus, Oren, Wawer, Mathias, Paavolainen, Lassi, Herrmann, Markus D, Rohban, Mohammad, Hung, Jane, Hennig, Holger, Concannon, John, Smith, Ian, Clemons, Paul A, Singh, Shantanu, Rees, Paul, Horvath, Peter, Linington, Roger G, Carpenter, Anne E

“…This Review covers the steps required to create high-quality image-based profiles from high-throughput microscopy images. Image-based cell profiling is a…”
Get full text

histoCAT: analysis of cell phenotypes and interactions in multiplex image cytometry data by Schapiro, Denis, Jackson, Hartland W, Raghuraman, Swetha, Fischer, Jana R, Zanotelli, Vito R T, Schulz, Daniel, Giesen, Charlotte, Catena, Raúl, Varga, Zsuzsanna, Bodenmiller, Bernd

“…The histology topography cytometry analysis toolbox (histoCAT) enables quantitative analysis and exploration of highly multiplexed imaging data for better…”
Get full text

Probing the binding specificities of human Siglecs by cell-based glycan arrays by Büll, Christian, Nason, Rebecca, Sun, Lingbo, Van Coillie, Julie, Madriz Sørensen, Daniel, Moons, Sam J, Yang, Zhang, Arbitman, Steven, Fernandes, Steve M, Furukawa, Sanae, McBride, Ryan, Nycholat, Corwin M, Adema, Gosse J, Paulson, James C, Schnaar, Ronald L, Boltje, Thomas J, Clausen, Henrik, Narimatsu, Yoshiki

“…Siglecs are a family of sialic acid-binding receptors expressed by cells of the immune system and a few other cell types capable of modulating immune cell…”
Get more information

Microfluidic blood–brain barrier model provides in vivo‐like barrier properties for drug permeability screening by Wang, Ying I., Abaci, Hasan Erbil, Shuler, Michael L.

“…Efficient delivery of therapeutics across the neuroprotective blood–brain barrier (BBB) remains a formidable challenge for central nervous system drug…”
Get full text

Multi-tissue interactions in an integrated three-tissue organ-on-a-chip platform by Skardal, Aleksander, Murphy, Sean V., Devarasetty, Mahesh, Mead, Ivy, Kang, Hyun-Wook, Seol, Young-Joon, Shrike Zhang, Yu, Shin, Su-Ryon, Zhao, Liang, Aleman, Julio, Hall, Adam R., Shupe, Thomas D., Kleensang, Andre, Dokmeci, Mehmet R., Jin Lee, Sang, Jackson, John D., Yoo, James J., Hartung, Thomas, Khademhosseini, Ali, Soker, Shay, Bishop, Colin E., Atala, Anthony

“…Many drugs have progressed through preclinical and clinical trials and have been available – for years in some cases – before being recalled by the FDA for…”
Get full text

A vascularized and perfused organ-on-a-chip platform for large-scale drug screening applications by Phan, Duc T T, Wang, Xiaolin, Craver, Brianna M, Sobrino, Agua, Zhao, Da, Chen, Jerry C, Lee, Lilian Y N, George, Steven C, Lee, Abraham P, Hughes, Christopher C W

“…There is a growing awareness that complex 3-dimensional (3D) organs are not well represented by monolayers of a single cell type - the standard format for many…”
Get more information

A lung/liver-on-a-chip platform for acute and chronic toxicity studies by Bovard, David, Sandoz, Antonin, Luettich, Karsta, Frentzel, Stefan, Iskandar, Anita, Marescotti, Diego, Trivedi, Keyur, Guedj, Emmanuel, Dutertre, Quentin, Peitsch, Manuel C, Hoeng, Julia

“…The merging of three-dimensional in vitro models with multi-organ-on-a-chip (MOC) technology has taken in vitro assessment of chemicals to an unprecedented…”
Get more information

Claudin-18 expression in oesophagogastric adenocarcinomas: a tissue microarray study of 523 molecularly profiled cases by Coati, Irene, Lotz, Gábor, Fanelli, Giuseppe Nicolò, Brignola, Stefano, Lanza, Cristiano, Cappellesso, Rocco, Pellino, Antonio, Pucciarelli, Salvatore, Spolverato, Gaya, Guzzardo, Vincenza, Munari, Giada, Zaninotto, Giovanni, Scarpa, Marco, Mastracci, Luca, Farinati, Fabio, Realdon, Stefano, Pilati, Pierluigi, Lonardi, Sara, Valeri, Nicola, Rugge, Massimo, Kiss, Andras, Loupakis, Fotios, Fassan, Matteo

“…Background Claudin-18 (CLDN18) is a highly specific tight junction protein of the gastric mucosa. An isoform of CLDN18, the Claudin 18.2, has recently emerged…”
Get full text

A reductionist metastasis-on-a-chip platform for in vitro tumor progression modeling and drug screening by Skardal, Aleksander, Devarasetty, Mahesh, Forsythe, Steven, Atala, Anthony, Soker, Shay

“…Current animal and 2‐D cell culture models employed in metastasis research and drug discovery remain poor mimics of human cancer physiology. Here we describe a…”
Get full text

3D niche microarrays for systems-level analyses of cell fate by Ranga, A., Gobaa, S., Okawa, Y., Mosiewicz, K., Negro, A., Lutolf, M. P.

“…The behaviour of mammalian cells in a tissue is governed by the three-dimensional (3D) microenvironment and involves a dynamic interplay between biochemical…”
Get full text

Statistical characterization and classification of colon microarray gene expression data using multiple machine learning paradigms by Maniruzzaman, Md, Jahanur Rahman, Md, Ahammed, Benojir, Abedin, Md. Menhazul, Suri, Harman S., Biswas, Mainak, El-Baz, Ayman, Bangeas, Petros, Tsoulfas, Georgios, Suri, Jasjit S.

“…•Identification of high risk differential gene expression using statistical tests.•Development of a machine learning strategy for predicting the cancerous…”
Get full text

Pre-arrayed Pan-AAV Peptide Display Libraries for Rapid Single-Round Screening by Börner, Kathleen, Kienle, Eike, Huang, Lin-Ya, Weinmann, Jonas, Sacher, Anna, Bayer, Philipp, Stüllein, Christian, Fakhiri, Julia, Zimmermann, Laura, Westhaus, Adrian, Beneke, Jürgen, Beil, Nina, Wiedtke, Ellen, Schmelas, Carolin, Miltner, Dominik, Rau, Alexander, Erfle, Holger, Kräusslich, Hans-Georg, Müller, Martin, Agbandje-McKenna, Mavis, Grimm, Dirk

“…Display of short peptides on the surface of adeno-associated viruses (AAVs) is a powerful technology for the generation of gene therapy vectors with altered…”
Get more information

Transcriptomic analysis of probable asymptomatic and symptomatic alzheimer brains by Patel, Hamel, Hodges, Angela K., Curtis, Charles, Lee, Sang Hyuck, Troakes, Claire, Dobson, Richard J.B., Newhouse, Stephen J.

“…•Asymptomatic AD subjects show increased transcriptomic activity in frontal cortex.•Disruption in brain energy pathway detected in Asymptomatic AD…”
Get full text

Centromere and kinetochore gene misexpression predicts cancer patient survival and response to radiotherapy and chemotherapy by Zhang, Weiguo, Mao, Jian-Hua, Zhu, Wei, Jain, Anshu K., Liu, Ke, Brown, James B., Karpen, Gary H.

“…Chromosomal instability (CIN) is a hallmark of cancer that contributes to tumour heterogeneity and other malignant properties. Aberrant centromere and…”
Get full text

Pooled CRISPR screens with imaging on microraft arrays reveals stress granule-regulatory factors by Wheeler, Emily C., Vu, Anthony Q., Einstein, Jaclyn M., DiSalvo, Matthew, Ahmed, Noorsher, Van Nostrand, Eric L., Shishkin, Alexander A., Jin, Wenhao, Allbritton, Nancy L., Yeo, Gene W.

“…Genetic screens using pooled CRISPR-based approaches are scalable and inexpensive, but restricted to standard readouts, including survival, proliferation and…”
Get full text

Human stomach-on-a-chip with luminal flow and peristaltic-like motility by Lee, Kang Kug, McCauley, Heather A, Broda, Taylor R, Kofron, Matthew J, Wells, James M, Hong, Christian I

“…Current in vitro approaches and animal models have critical limitations for modeling human gastrointestinal diseases because they may not properly represent…”
Get more information

Mapping of truncated O-glycans in cancers of epithelial and non-epithelial origin by Rømer, Troels Boldt, Aasted, Mikkel Koed Møller, Dabelsteen, Sally, Groen, Aaron, Schnabel, Julia, Tan, Edwin, Pedersen, Johannes Wirenfeldt, Haue, Amalie Dahl, Wandall, Hans Heugh

“…Background Novel immunotherapies targeting cancer-associated truncated O-glycans Tn (GalNAcα-Ser/Thr) and STn (Neu5Acα2–6GalNacα-Ser/Thr) are promising…”
Get full text

Concordance study of PD-L1 expression in primary and metastatic bladder carcinomas: comparison of four commonly used antibodies and RNA expression by Tretiakova, Maria, Fulton, Regan, Kocherginsky, Masha, Long, Thomas, Ussakli, Cigdem, Antic, Tatjana, Gown, Allen

“…Therapy with anti-PD-L1 immune check-point inhibitors is approved for several cancers, including advanced urothelial carcinomas. PD-L1 prevalence estimates…”
Get full text