bioconductor: CODEX | Projects | Ecosyste.ms: Papers

10.3389/fonc.2020.00423

Computational Oncology in the Multi-Omics Era: State of the Art
Cited by: 55
Author(s): Guillermo de Anda-Jáuregui, Enrique Hernández‐Lemus
Software Mentions: 46
Published: over 4 years ago

A verified genomic reference sample for assessing performance of cancer panels detecting small variants of low allele frequency
Cited by: 24
Author(s): Wendell Jones, Binsheng Gong, Natalia Novoradovskaya, Dan Li, Rebecca Kusko, Todd Richmond, Donald J. Johann, Halil Bişğin, Sayed Mohammad Ebrahim Sahraeian, Pierre R. Bushel, Mehdi Pirooznia, Katherine Wilkins, Marco Chierici, Wenjun Bao, Lee S Basehore, Anne Bergstrom Lucas, Daniel L. Burgess, Daniel Butler, Simon Cawley, Chia Jung Chang, Guangchun Chen, Tao Chen, Yun Ching Chen, Daniel J. Craig, Ángela del Pozo, Jonathan Foox, Margherita Francescatto, Yutao Fu, Cesare Furlanello, Kristina Giorda, Kira P. Grist, Meijian Guan, You-Zeng Hao, Scott Happe, Gunjan Hariani, Nathan Haseley, Jeff S. Jasper, Giuseppe Jurman, David P. Kreil, Paweł P. Łabaj, Kevin Lai, Jianying Li, Quan Zhen Li, Yulong Li, Chi Kong Li, Zhichao Liu, Mario Solís-López, Kelci Miclaus, Raymond D. Miller, Vinay Kumar Mittal, Marghoob Mohiyuddin, Carlos Pabón-Peña, Barbara L. Parsons, Fujun Qiu, Andreas Scherer, Tieliu Shi, Suzy M. Stiegelmeyer, Chen Suo, Nikola Tom, Dong Wang, Zhining Wen, Leihong Wu, Wenzhong Xiao, Chang Xu, Ying Yu, Jiyang Zhang, Yifan Zhang, Zhihong Zhang, Yuanting Zheng, Christopher E. Mason, James C. Willey, Leming Shi, Joshua Xu
Software Mentions: 10
Published: over 3 years ago

10.1371/journal.pcbi.1004873

CNVkit: Genome-Wide Copy Number Detection and Visualization from Targeted DNA Sequencing
Cited by: 1,141
Author(s): Eric Talevich, A. Hunter Shain, Thomas Botton, Boris C. Bastian
Software Mentions: 9
Published: over 8 years ago

10.1186/s40425-019-0763-1

34th Annual Meeting & Pre-Conference Programs of the Society for Immunotherapy of Cancer (SITC 2019): part 1
Cited by: 31
Author(s):
Software Mentions: 9
Published: about 5 years ago

10.1186/s13059-021-02286-2

Giotto: a toolbox for integrative analysis and visualization of spatial expression data
Cited by: 290
Author(s): Ruben Dries, Qi Zhu, Rui Dong, Chee-Huat Linus Eng, Huipeng Li, Kan Liu, Yuntian Fu, Tianxiao Zhao, Arpan Sarkar, Feng Bao, Rani E. George, Nico Pierson, Long Cai, Guo‐Cheng Yuan
Software Mentions: 9
Published: over 3 years ago

10.3389/fonc.2020.01254

Unraveling the Complexity of the Cancer Microenvironment With Multidimensional Genomic and Cytometric Technologies
Cited by: 39
Author(s): Natasja L. de Vries, Ahmed Mahfouz, Frits Koning, Noel F.C.C. de Miranda
Software Mentions: 8
Published: over 4 years ago

10.1038/s41392-021-00729-7

Technological advances in cancer immunity: from immunogenomics to single-cell analysis and artificial intelligence
Cited by: 34
Author(s): Ying Xu, Guan-Hua Su, Ding Ma, Yi Xiao, Zhi-Ming Shao
Software Mentions: 8
Published: over 3 years ago

10.3389/fgene.2020.00082

SECNVs: A Simulator of Copy Number Variants and Whole-Exome Sequences From Reference Genomes
Cited by: 6
Author(s): Yue Xing, Alan R. Dabney, Xiao Li, Guosong Wang, C. A. Gill, Claudio Casola
Software Mentions: 7
Published: almost 5 years ago

10.1016/j.stem.2018.06.014

Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells
Cited by: 137
Author(s): Tahsin Stefan Barakat, Florian Halbritter, Man Zhang, André F. Rendeiro, Elena Perenthaler, Christoph Bock, Ian Chambers
Software Mentions: 6
Published: over 6 years ago

10.3389/fimmu.2021.590742

High Throughput Multi-Omics Approaches for Clinical Trial Evaluation and Drug Discovery
Cited by: 30
Author(s): Jessica Zielinski, Jason J. Luke, Silvia Guglietta, Carsten Krieg
Software Mentions: 5
Published: over 3 years ago

10.7554/eLife.53839

Cancer systems immunology
Cited by: 12
Author(s): Nathan E. Reticker-Flynn, Edgar G. Engleman
Software Mentions: 5
Published: over 4 years ago

10.1186/s12859-019-3055-3

Cytokit: a single-cell analysis toolkit for high dimensional fluorescent microscopy imaging
Cited by: 38
Author(s): Eric Czech, Bülent Arman Aksoy, Pınar Aksoy, Jeff Hammerbacher
Software Mentions: 5
Published: about 5 years ago

10.18632/oncotarget.15932

Gene-based comparative analysis of tools for estimating copy number alterations using whole-exome sequencing data
Cited by: 18
Author(s): Hyung-Yong Kim, Jin‐Woo Choi, Jeong-Yeon Lee, Gu Kong
Software Mentions: 5
Published: over 7 years ago

10.1093/gigascience/giaa109

A map of tumor–host interactions in glioma at single-cell resolution
Cited by: 31
Author(s): Francesca Pia Caruso, Luciano Garofano, Fulvio D’Angelo, Kai Yu, Fuchou Tang, Jinzhou Yuan, Jing Zhang, Luigi Cerulo, Stefano Maria Pagnotta, Davide Bedognetti, Peter A. Sims, Mario L. Suvà, Xiao‐Dong Su, Anna Lasorella, Antonio Iavarone, Michele Ceccarelli
Software Mentions: 4
Published: about 4 years ago

10.1186/s12859-019-2889-z

Comparison of kNN and k-means optimization methods of reference set selection for improved CNV callers performance
Cited by: 12
Author(s): Wiktor Kuśmirek, Agnieszka Szmurło, Marek Wiewiórka, Robert Nowak, Tomasz Gambin
Software Mentions: 4
Published: over 5 years ago

10.1172/jci.insight.147703

Integration of spatial and single-cell transcriptomics localizes epithelial cell–immune cross-talk in kidney injury
Cited by: 68
Author(s): Ricardo Melo Ferreira, Angela R Sabo, Seth Winfree, Kimberly S. Collins, Danielle Janosevic, Connor J. Gulbronson, Ying‐Hua Cheng, Lauren Casbon, Daria Barwinska, Michael J. Ferkowicz, Xiaoling Xuei, Chi Zhang, Kenneth W. Dunn, Katherine J. Kelly, Timothy A. Sutton, Takashi Hato, Pierre C. Dagher, Tarek M. El‐Achkar, Michael T. Eadon
Software Mentions: 4
Published: over 3 years ago

10.3389/fimmu.2021.652631

Adjacent Cell Marker Lateral Spillover Compensation and Reinforcement for Multiplexed Images
Cited by: 19
Author(s): Yunhao Bai, Bokai Zhu, Xavier Rovira-Clavé, Han Chen, Maxim Markovic, Chi N. Chan, Tung–Hung Su, David R. McIlwain, Jacob D. Estes, Leeat Keren, Garry P. Nolan, Sizun Jiang
Software Mentions: 4
Published: over 3 years ago

10.1038/s41598-021-93878-2

Benchmarking germline CNV calling tools from exome sequencing data
Cited by: 27
Author(s): Veronika Gordeeva, Е. И. Шарова, Konstantin Babalyan, Rinat Sultanov, Vadim M. Govorun, Georgij Arapidi
Software Mentions: 4
Published: over 3 years ago

10.3389/fmicb.2021.709728

Spatially Resolved Immunometabolism to Understand Infectious Disease Progression
Cited by: 6
Author(s): Roel Tans, Shoumit Dey, Nidhi Sharma Dey, Grant Calder, Peter O’Toole, Paul M. Kaye, Ron M. A. Heeren
Software Mentions: 3
Published: over 3 years ago

10.1186/s13059-018-1578-y

CODEX2: full-spectrum copy number variation detection by high-throughput DNA sequencing
Cited by: 55
Author(s): Y. Jiang, Rujin Wang, Eugene Urrutia, Ioannis N. Anastopoulos, Katherine L. Nathanson, Nancy R. Zhang
Software Mentions: 3
Published: almost 6 years ago

10.1038/s42003-020-01499-8

Development of a sequencing system for spatial decoding of DNA barcode molecules at single-molecule resolution
Cited by: 3
Author(s): Yusuke Oguchi, Hirofumi Shintaku, Shunsuke Uemura
Software Mentions: 3
Published: almost 4 years ago

10.1002/advs.202002825

Engineered Tools to Study Intercellular Communication
Cited by: 30
Author(s): Benjamin Yang, Trisha M. Westerhof, Kaitlyn Sabin, Sofía D. Merajver, Carlos A. Aguilar
Software Mentions: 3
Published: almost 4 years ago

10.1093/gigascience/giy112

Ximmer: a system for improving accuracy and consistency of CNV calling from exome data
Cited by: 25
Author(s): Simon Sadedin, Justine A. Ellis, Seth L. Masters, Alicia Oshlack
Software Mentions: 3
Published: about 6 years ago

10.15252/msb.202010026

CODEX, a neural network approach to explore signaling dynamics landscapes
Cited by: 10
Author(s): Marc‐Antoine Jacques, Maciej Dobrzyński, Paolo Armando Gagliardi, Raphael Sznitman, Olivier Pertz
Software Mentions: 3
Published: over 3 years ago

10.2147/SCCAA.S237361

Informatics Approaches for Harmonized Intelligent Integration of Stem Cell Research
Cited by: 4
Author(s): Joseph Finkelstein, Irena Parvanova, Frederick Zhang
Software Mentions: 2
Published: almost 5 years ago

10.3389/fonc.2021.652696

Unique Combination of Diamond–Blackfan Anemia and Lynch Syndrome in Adult Female: A Case Report
Cited by: 1
Author(s): А. С. Цуканов, D. Yu. Pikunov, В. П. Шубин, Aleksey A. Barinov, В. Н. Кашников, Yuri Shelygin, А. Д. Каприн, Е. В. Филоненко, Д. В. Сидоров, Aleksey Maschan, Galina Novichkova, Ludmila Yasko, Е. В. Райкина, Aleksandr G. Rumyantsev
Software Mentions: 2
Published: over 3 years ago

10.1371/journal.pone.0133160

The Pneumonia Severity Index as a Predictor of In-Hospital Mortality in Acute Exacerbation of Chronic Obstructive Pulmonary Disease
Cited by: 19
Author(s): Guoping Hu, Yumin Zhou, Yankui Wu, Yan Yu, Wenjie Liang, Pixin Ran
Software Mentions: 2
Published: over 9 years ago

10.1117/1.JBO.25.5.056004

Oligonucleotide conjugated antibodies permit highly multiplexed immunofluorescence for future use in clinical histopathology
Cited by: 15
Author(s): Nathan P. McMahon, Jocelyn Jones, Sunjong Kwon, Koei Chin, Michel Nederlof, Joe W. Gray, Summer L. Gibbs
Software Mentions: 2
Published: over 4 years ago

10.1002/eji.202048891

Highly multiplexed tissue imaging using repeated oligonucleotide exchange reaction
Cited by: 44
Author(s): Julia Kennedy‐Darling, Salil Bhate, John W. Hickey, Sarah Black, Graham L. Barlow, Gustavo Vázquez, Vishal G. Venkataraaman, Nikolay Samusik, Yury Goltsev, Christian M. Schürch, Garry P. Nolan
Software Mentions: 2
Published: over 3 years ago

10.1016/j.cell.2020.07.005

Coordinated Cellular Neighborhoods Orchestrate Antitumoral Immunity at the Colorectal Cancer Invasive Front
Cited by: 380
Author(s): Christian M. Schürch, Salil Bhate, Graham L. Barlow, Darci Phillips, Luca Noti, Inti Zlobec, Pauline Chu, Sarah Black, János Demeter, David R. McIlwain, Shigemi Kinoshita, Nikolay Samusik, Yury Goltsev, Garry P. Nolan
Software Mentions: 2
Published: about 4 years ago

10.1038/s41598-017-04642-4

Korean Variant Archive (KOVA): a reference database of genetic variations in the Korean population
Cited by: 56
Author(s): Sang Moon Lee, Jihae Seo, Jinman Park, Jae Yong Nam, Ahyoung Choi, Jason S. Ignatius, Robert Bjornson, Jong Hee Chae, In Jin Jang, Sanghyuk Lee, Woong-Yang Park, Daehyun Baek, Murim Choi
Software Mentions: 2
Published: over 7 years ago

10.1186/s12859-021-04246-w

Pre-capture multiplexing provides additional power to detect copy number variation in exome sequencing
Cited by: 1
Author(s): Dayne L. Filer, Fengshen Kuo, Alicia Brandt, Christian R. Tilley, Piotr A. Mieczkowski, Jonathan S. Berg, Kimberly Robasky, Yun Li, Chris Bizon, Jeffery L. Tilson, Bradford C. Powell, Darius M. Bost, Clark Jeffries, Kirk C. Wilhelmsen
Software Mentions: 2
Published: over 3 years ago

10.3389/fgene.2020.569227

RKDOSCNV: A Local Kernel Density-Based Approach to the Detection of Copy Number Variations by Using Next-Generation Sequencing Data
Cited by: 5
Author(s): Guojun Liu, Junying Zhang, Xiguo Yuan, Chao Wei
Software Mentions: 2
Published: about 4 years ago

10.3390/ijerph16132418

Technology-Based Motivation Support for Seniors’ Physical Activity—A Qualitative Study on Seniors’ and Health Care Professionals’ Views
Cited by: 18
Author(s): Maria Ehn, Ann Christin Johansson, Åsa Revenäs
Software Mentions: 2
Published: over 5 years ago

10.3390/ijms21218345

Review of Single-Cell RNA Sequencing in the Heart
Cited by: 38
Author(s): Shintaro Yamada, Seitaro Nomura
Software Mentions: 2
Published: about 4 years ago

10.1098/rsob.200300

Cellular sociology regulates the hierarchical spatial patterning and organization of cells in organisms
Cited by: 5
Author(s): Shambavi Ganesh, Beliz Utebay, Jeremy J Heit, Ahmet F. Coşkun
Software Mentions: 2
Published: almost 4 years ago

10.3389/fgene.2019.00819

Association of Rare Recurrent Copy Number Variants With Congenital Heart Defects Based on Next-Generation Sequencing Data From Family Trios
Cited by: 14
Author(s): Yichuan Liu, Xiao Chang, Joseph Glessner, Hui‐Qi Qu, Lifeng Tian, Dong Liu, Kenny Nguyen, Patrick Sleiman, Hákon Hákonarson
Software Mentions: 2
Published: about 5 years ago

10.3389/fgene.2020.590924

Characteristics of Genetic Variations Associated With Lennox-Gastaut Syndrome in Korean Families
Cited by: 1
Author(s): Jin Yang, Min Hyuk Choi, Ji‐Yong Yoon, Jeong-Ju Lee, Sang Ook Nam, Soo Young Jun, Hyeok Hee Kwon, Sohyun Yun, Sang-Woon Jeon, Iksu Byeon, Debasish Halder, Jai-Yul Kong, Byung-Wook Lee, Jeehun Lee, Joon‐Won Kang, Nam-Soon Kim
Software Mentions: 2
Published: almost 4 years ago

10.1093/database/baz141

ChIPSummitDB: a ChIP-seq-based database of human transcription factor binding sites and the topological arrangements of the proteins bound to them
Cited by: 11
Author(s): Erik Czipa, Mátyás Schiller, Tibor Nagy, Levente Kontra, László Steiner, Júlia Koller, Orsolya Pálné-Szén
Software Mentions: 2
Published: almost 5 years ago

10.3390/nu11030487

Gluten Free Wheat: Are We There?
Cited by: 51
Author(s): María Dolores García-Molina, María J. Giménez, Susana Sánchez-León, Francisco Barro
Software Mentions: 1
Published: over 5 years ago

10.1186/s12859-018-2409-6

DeviCNV: detection and visualization of exon-level copy number variants in targeted next-generation sequencing data
Cited by: 11
Author(s): Yeeok Kang, Seong Hyeuk Nam, Kyung Sun Park, Yoonjung Kim, Jong Won Kim, Eunjung Lee, Jung Min Ko, Kyung A. Lee, Inho Park
Software Mentions: 1
Published: about 6 years ago

10.1002/brb3.2095

Cognitive decline among older adults: A hidden preexisting condition and its role in ‘brain‐at‐risk’ surgical patients
Cited by: 1
Author(s): Connor T. A. Brenna, Beverley A. Orser, Sinziana Avramescu, Andrew Fleet, Lilia Kaustov, Stephen Choi
Software Mentions: 1
Published: over 3 years ago

10.1097/MD.0000000000022663

A case report: identification of a novel exon 1 deletion mutation in the GNE gene in a Chinese patient with GNE myopathy
Cited by: 2
Author(s): Miao Jin, Xiaojing Wei, Xu Wang, Xiang Yin, Yu Xiao
Software Mentions: 1
Published: about 4 years ago

10.1002/mnfr.201700297

Evaluating Potential Risks of Food Allergy and Toxicity of Soy Leghemoglobin Expressed in Pichia pastoris
Cited by: 38
Author(s): Jing Yuan, Xiaoyun He, Kwame Andoh-Kumi, Rachel Z. Fraser, Mei Lü, Richard E. Goodman
Software Mentions: 1
Published: about 7 years ago

10.1371/journal.pone.0157125

Comparison of the Lonidamine Potentiated Effect of Nitrogen Mustard Alkylating Agents on the Systemic Treatment of DB-1 Human Melanoma Xenografts in Mice
Cited by: 7
Author(s): Kavindra Nath, David S. Nelson, Mary Putt, Dennis B. Leeper, Bradley Garman, Katherine L. Nathanson, Jerry D. Glickson
Software Mentions: 1
Published: over 8 years ago

10.1371/journal.pone.0075993

Measuring the Evolution of Ontology Complexity: The Gene Ontology Case Study
Cited by: 10
Author(s): Olivier Dameron, Charles Bettembourg, Nolwenn Le Meur
Software Mentions: 1
Published: about 11 years ago

10.3390/cancers11020247

State-of-the-Art of Profiling Immune Contexture in the Era of Multiplexed Staining and Digital Analysis to Study Paraffin Tumor Tissues
Cited by: 86
Author(s): Edwin R. Parra, Alejandro Francisco‐Cruz, Ignacio I. Wistuba
Software Mentions: 1
Published: almost 6 years ago

10.1016/j.cell.2018.07.010

Deep Profiling of Mouse Splenic Architecture with CODEX Multiplexed Imaging
Cited by: 829
Author(s): Yury Goltsev, Nikolay Samusik, Julia Kennedy‐Darling, Salil Bhate, Matthew B. Hale, Gustavo Vázquez, Sarah Black, Garry P. Nolan
Software Mentions: 1
Published: over 6 years ago

10.1002/cphc.202000517

Centerband‐Only Detection of Exchange NMR with Natural‐Abundance Correction Reveals an Expanded Unit Cell in Phenylalanine Crystals
Cited by: 4
Author(s): Kai Xue, Rıza Dervişoğlu, Heidrun Sowa, Loren B. Andreas
Software Mentions: 1
Published: over 4 years ago

10.1002/cti2.1215

The evolving landscape of predictive biomarkers in immuno‐oncology with a focus on spatial technologies
Cited by: 20
Author(s): Habib Sadeghi Rad, Sajad Razavi Bazaz, James Monkman, Majid Ebrahimi Warkiani, Nima Rezaei, Kenneth J. O’Byrne, Arutha Kulasinghe
Software Mentions: 1
Published: almost 5 years ago

10.1242/dev.139113

Sall4 controls differentiation of pluripotent cells independently of the Nucleosome Remodelling and Deacetylation (NuRD) complex
Cited by: 49
Author(s): Anzy Miller, Markus Ralser, Susan L. Kloet, Remco Loos, Ryuichi Nishinakamura, Paul Bertone, Michiel Vermeulen, Brian Hendrich
Software Mentions: 1
Published: almost 9 years ago

10.1242/dmm.048942

The MEMIC is an ex vivo system to model the complexity of the tumor microenvironment
Cited by: 7
Author(s): Libuše Janská, Libi Anandi, Nell C. Kirchberger, Zoran S. Marinkovic, Logan T. Schachtner, Gizem Guzelsoy, Carlos Carmona‐Fontaine
Software Mentions: 1
Published: over 3 years ago

10.1029/2020EA001177

Pb‐Pb Dating of Terrestrial and Extraterrestrial Samples Using Resonance Ionization Mass Spectrometry
Cited by: 2
Author(s): F. S. Anderson, C. A. Crow, Jonathan L Levine, T. J. Whitaker
Software Mentions: 1
Published: about 4 years ago

10.1186/s13072-015-0009-5

Occupancy by key transcription factors is a more accurate predictor of enhancer activity than histone modifications or chromatin accessibility
Cited by: 98
Author(s): Nergiz Dogan, Weisheng Wu, Christapher S. Morrissey, Kuan Bei Chen, Aaron J. Stonestrom, Maria Long, Cheryl A. Keller, Yong Cheng, Deepti Jain, Axel Visel, Len A. Pennacchio, Mitchell J. Weiss, Gerd A. Blobel, Ross C. Hardison
Software Mentions: 1
Published: over 9 years ago

10.1140/epjc/s10052-017-5479-0

Forecast and analysis of the cosmological redshift drift
Cited by: 11
Author(s): Ruth Lazkoz, Iker Leanizbarrutia, Vincenzo Salzano
Software Mentions: 1
Published: almost 7 years ago

10.12688/f1000research.20856.1

Single-cell analyses uncover granularity of muscle stem cells
Cited by: 9
Author(s): John Saber, Alexander Y. Lin, Michael A. Rudnicki
Software Mentions: 1
Published: almost 5 years ago

10.3389/fbioe.2015.00092

Detection of Genomic Structural Variants from Next-Generation Sequencing Data
Cited by: 188
Author(s): Lorenzo Tattini, Romina D’Aurizio, Alberto Magi
Software Mentions: 1
Published: over 9 years ago

10.3389/fimmu.2021.727626

Strategies for Accurate Cell Type Identification in CODEX Multiplexed Imaging Data
Cited by: 43
Author(s): John W. Hickey, Yuqi Tan, Garry P. Nolan, Yury Goltsev
Software Mentions: 1
Published: over 3 years ago

10.3389/fimmu.2020.600822

Immovable Object Meets Unstoppable Force? Dialogue Between Resident and Peripheral Myeloid Cells in the Inflamed Brain
Cited by: 8
Author(s): Alanna Gabrielle Spiteri, Claire L Wishart, Nicholas J. C. King
Software Mentions: 1
Published: almost 4 years ago

10.3389/fimmu.2021.687673

Highly Multiplexed Phenotyping of Immunoregulatory Proteins in the Tumor Microenvironment by CODEX Tissue Imaging
Cited by: 46
Author(s): Darci Phillips, Christian M. Schürch, Michael S. Khodadoust, Youn H Kim, Garry P. Nolan, Sizun Jiang
Software Mentions: 1
Published: over 3 years ago

10.3389/fneur.2020.00239

Novel NtA and LG1 Mutations in Agrin in a Single Patient Causes Congenital Myasthenic Syndrome
Cited by: 4
Author(s): Aiping Wang, Yangyang Xiao, Peng Huang, Lingjuan Liu, Jie Xiong, Jian Li, Ding-An Mao
Software Mentions: 1
Published: over 4 years ago

10.1016/j.gpb.2016.10.004

Biological Databases for Hematology Research
Cited by: 7
Author(s): Qian Zhang, Nan Ding, Lu Zhang, Xuetong Zhao, Yadong Yang, Hongzhu Qu, Xiangdong Fang
Software Mentions: 1
Published: almost 8 years ago

10.1155/2014/768406

Determination ofβ-Galactooligosaccharides by Liquid Chromatography
Cited by: 16
Author(s): Sean Austin, Thierry Bénet, Julien Michaud, Denis Cuany, Philippe F. Rohfritsch
Software Mentions: 1
Published: almost 11 years ago

10.1186/s13326-015-0020-6

Region Evolution eXplorer – A tool for discovering evolution trends in ontology regions
Cited by: 4
Author(s): Victor Christen, Michael Hartung, Anika Groß
Software Mentions: 1
Published: over 9 years ago

10.1089/cmb.2019.0340

Modeling Multiplexed Images with Spatial-LDA Reveals Novel Tissue Microenvironments
Cited by: 32
Author(s): Zhenghao Chen, Ilya Soifer, Hugo G. Hilton, Leeat Keren, Vladimir Jojic
Software Mentions: 1
Published: over 4 years ago

10.3390/polym10070775

Chain Trajectory, Chain Packing, and Molecular Dynamics of Semicrystalline Polymers as Studied by Solid-State NMR
Cited by: 7
Author(s): Shijun Wang, You‐lee Hong, Shichen Yuan, Wei Chen, Wenda Zhou, Zhen Li, Kun Wang, Min Xu, Takashi Konishi, Toshikazu Miyoshi
Software Mentions: 1
Published: over 6 years ago

10.1136/thoraxjnl-2016-209298

The PEARL score predicts 90-day readmission or death after hospitalisation for acute exacerbation of COPD
Cited by: 50
Author(s): Carlos Echevarria, John Steer, Karen Heslop-Marshall, SC Stenton, Peter Hickey, Rodney Hughes, Meme Wijesinghe, Richard Harrison, Nick Steen, A. John Simpson, Gretchen Gibson, SC Bourke
Software Mentions: 1
Published: over 7 years ago

10.1186/s40246-018-0167-1

Whole-exome sequencing identifies novel pathogenic mutations and putative phenotype-influencing variants in Polish limb-girdle muscular dystrophy patients
Cited by: 37
Author(s): Jakub Piotr Fichna, Anna Macias, Marcin Piechota, Michał Korostyński, Anna Potulska‐Chromik, Maria Jolanta Redowicz, Cezary Żekanowski
Software Mentions: 1
Published: over 6 years ago

10.1002/iub.2195

Systematic integration of GATA transcription factors and epigenomes via IDEAS paints the regulatory landscape of hematopoietic cells
Cited by: 6
Author(s): Ross C. Hardison, Yu Zhang, Cheryl A. Keller, Guanjue Xiang, Elisabeth F. Heuston, Lin An, Jens Lichtenberg, Belinda Giardine, David M. Bodine, Shaun Mahony, Qunhua Li, Feng Yue, Mitchell J. Weiss, Gerd A. Blobel, James Taylor, Jim R. Hughes, Douglas R. Higgs, Berthold Göttgens
Software Mentions: 1
Published: almost 5 years ago

10.7554/eLife.31657

Highly multiplexed immunofluorescence imaging of human tissues and tumors using t-CyCIF and conventional optical microscopes
Cited by: 418
Author(s): Jia-Ren Lin, Benjamin Izar, Shu Wang, Clarence Yapp, Shaolin Mei, Parin Shah, Sandro Santagata, Peter K. Sorger
Software Mentions: 1
Published: over 6 years ago

10.1186/1475-2891-13-34

CODEX-aligned dietary fiber definitions help to bridge the ‘fiber gap’
Cited by: 278
Author(s): Julie Miller Jones
Software Mentions: 1
Published: over 10 years ago

10.3390/nu12030812

Development and Validation of Surveys to Estimate Food Additive Intake
Cited by: 2
Author(s): Gina L. Trakman, Weitao Lin, Amy Wilson-O’Brien, Annalise Stanley, Amy L. Hamilton, Whitney Tang, Leo Or, Jessica Y. L. Ching, Mark Morrison, Jun Yu, Siew C. Ng, Michael A. Kamm
Software Mentions: 1
Published: over 4 years ago

Projects: bioconductor: CODEX

Papers Mentioning CODEX 72