A citation-based method for searching scientific literature

Parker C Wilson, Haojia Wu, Yuhei Kirita, Kohei Uchimura, Nicolas Ledru, Helmut G Rennke, Paul A Welling, Sushrut S Waikar, Benjamin D Humphreys. Proc Natl Acad Sci U S A 2019
Times Cited: 121







List of co-cited articles
856 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Single-cell transcriptomics of the mouse kidney reveals potential cellular targets of kidney disease.
Jihwan Park, Rojesh Shrestha, Chengxiang Qiu, Ayano Kondo, Shizheng Huang, Max Werth, Mingyao Li, Jonathan Barasch, Katalin Suszták. Science 2018
439
35

Single-Cell Transcriptomics of a Human Kidney Allograft Biopsy Specimen Defines a Diverse Inflammatory Response.
Haojia Wu, Andrew F Malone, Erinn L Donnelly, Yuhei Kirita, Kohei Uchimura, Sai M Ramakrishnan, Joseph P Gaut, Benjamin D Humphreys. J Am Soc Nephrol 2018
155
29


Single-Cell RNA Profiling of Glomerular Cells Shows Dynamic Changes in Experimental Diabetic Kidney Disease.
Jia Fu, Kemal M Akat, Zeguo Sun, Weijia Zhang, Detlef Schlondorff, Zhihong Liu, Thomas Tuschl, Kyung Lee, John Cijiang He. J Am Soc Nephrol 2019
60
38

The immune cell landscape in kidneys of patients with lupus nephritis.
Arnon Arazi, Deepak A Rao, Celine C Berthier, Anne Davidson, Yanyan Liu, Paul J Hoover, Adam Chicoine, Thomas M Eisenhaure, A Helena Jonsson, Shuqiang Li,[...]. Nat Immunol 2019
232
22

A single-nucleus RNA-sequencing pipeline to decipher the molecular anatomy and pathophysiology of human kidneys.
Blue B Lake, Song Chen, Masato Hoshi, Nongluk Plongthongkum, Diane Salamon, Amanda Knoten, Anitha Vijayan, Ramakrishna Venkatesh, Eric H Kim, Derek Gao,[...]. Nat Commun 2019
94
23

Single-cell transcriptomes from human kidneys reveal the cellular identity of renal tumors.
Matthew D Young, Thomas J Mitchell, Felipe A Vieira Braga, Maxine G B Tran, Benjamin J Stewart, John R Ferdinand, Grace Collord, Rachel A Botting, Dorin-Mirel Popescu, Kevin W Loudon,[...]. Science 2018
248
17

Single-Cell Profiling Reveals Sex, Lineage, and Regional Diversity in the Mouse Kidney.
Andrew Ransick, Nils O Lindström, Jing Liu, Qin Zhu, Jin-Jin Guo, Gregory F Alvarado, Albert D Kim, Hannah G Black, Junhyong Kim, Andrew P McMahon. Dev Cell 2019
112
16

Tubular cell and keratinocyte single-cell transcriptomics applied to lupus nephritis reveal type I IFN and fibrosis relevant pathways.
Evan Der, Hemant Suryawanshi, Pavel Morozov, Manjunath Kustagi, Beatrice Goilav, Saritha Ranabothu, Peter Izmirly, Robert Clancy, H Michael Belmont, Mordecai Koenigsberg,[...]. Nat Immunol 2019
150
15

Spatiotemporal immune zonation of the human kidney.
Benjamin J Stewart, John R Ferdinand, Matthew D Young, Thomas J Mitchell, Kevin W Loudon, Alexandra M Riding, Nathan Richoz, Gordon L Frazer, Joy U L Staniforth, Felipe A Vieira Braga,[...]. Science 2019
123
15

Integrating single-cell transcriptomic data across different conditions, technologies, and species.
Andrew Butler, Paul Hoffman, Peter Smibert, Efthymia Papalexi, Rahul Satija. Nat Biotechnol 2018
15

Comprehensive Integration of Single-Cell Data.
Tim Stuart, Andrew Butler, Paul Hoffman, Christoph Hafemeister, Efthymia Papalexi, William M Mauck, Yuhan Hao, Marlon Stoeckius, Peter Smibert, Rahul Satija. Cell 2019
15

Single-cell RNA sequencing of human kidney.
Jinling Liao, Zhenyuan Yu, Yang Chen, Mengying Bao, Chunlin Zou, Haiying Zhang, Deyun Liu, Tianyu Li, Qingyun Zhang, Jiaping Li,[...]. Sci Data 2020
59
22

Comparative Analysis and Refinement of Human PSC-Derived Kidney Organoid Differentiation with Single-Cell Transcriptomics.
Haojia Wu, Kohei Uchimura, Erinn L Donnelly, Yuhei Kirita, Samantha A Morris, Benjamin D Humphreys. Cell Stem Cell 2018
222
13

Transcriptome analysis of human diabetic kidney disease.
Karolina I Woroniecka, Ae Seo Deok Park, Davoud Mohtat, David B Thomas, James M Pullman, Katalin Susztak. Diabetes 2011
324
13

Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets.
Evan Z Macosko, Anindita Basu, Rahul Satija, James Nemesh, Karthik Shekhar, Melissa Goldman, Itay Tirosh, Allison R Bialas, Nolan Kamitaki, Emily M Martersteck,[...]. Cell 2015
12

Single cell transcriptomics identifies focal segmental glomerulosclerosis remission endothelial biomarker.
Rajasree Menon, Edgar A Otto, Paul Hoover, Sean Eddy, Laura Mariani, Bradley Godfrey, Celine C Berthier, Felix Eichinger, Lalita Subramanian, Jennifer Harder,[...]. JCI Insight 2020
45
26

Single-Cell Transcriptome Profiling of the Kidney Glomerulus Identifies Key Cell Types and Reactions to Injury.
Jun-Jae Chung, Leonard Goldstein, Ying-Jiun J Chen, Jiyeon Lee, Joshua D Webster, Merone Roose-Girma, Sharad C Paudyal, Zora Modrusan, Anwesha Dey, Andrey S Shaw. J Am Soc Nephrol 2020
34
35

Single cell RNA sequencing to dissect the molecular heterogeneity in lupus nephritis.
Evan Der, Saritha Ranabothu, Hemant Suryawanshi, Kemal M Akat, Robert Clancy, Pavel Morozov, Manjunath Kustagi, Mareike Czuppa, Peter Izmirly, H Michael Belmont,[...]. JCI Insight 2017
105
11

Cell profiling of mouse acute kidney injury reveals conserved cellular responses to injury.
Yuhei Kirita, Haojia Wu, Kohei Uchimura, Parker C Wilson, Benjamin D Humphreys. Proc Natl Acad Sci U S A 2020
83
13

Canagliflozin and Renal Outcomes in Type 2 Diabetes and Nephropathy.
Vlado Perkovic, Meg J Jardine, Bruce Neal, Severine Bompoint, Hiddo J L Heerspink, David M Charytan, Robert Edwards, Rajiv Agarwal, George Bakris, Scott Bull,[...]. N Engl J Med 2019
10

Kidney Single-Cell Atlas Reveals Myeloid Heterogeneity in Progression and Regression of Kidney Disease.
Bryan R Conway, Eoin D O'Sullivan, Carolynn Cairns, James O'Sullivan, Daniel J Simpson, Angela Salzano, Katie Connor, Peng Ding, Duncan Humphries, Kevin Stewart,[...]. J Am Soc Nephrol 2020
43
23

Single cell transcriptional and chromatin accessibility profiling redefine cellular heterogeneity in the adult human kidney.
Yoshiharu Muto, Parker C Wilson, Nicolas Ledru, Haojia Wu, Henrik Dimke, Sushrut S Waikar, Benjamin D Humphreys. Nat Commun 2021
43
23

Single cell census of human kidney organoids shows reproducibility and diminished off-target cells after transplantation.
Ayshwarya Subramanian, Eriene-Heidi Sidhom, Maheswarareddy Emani, Katherine Vernon, Nareh Sahakian, Yiming Zhou, Maria Kost-Alimova, Michal Slyper, Julia Waldman, Danielle Dionne,[...]. Nat Commun 2019
55
16

A Single-Cell Transcriptome Atlas of the Mouse Glomerulus.
Nikos Karaiskos, Mahdieh Rahmatollahi, Anastasiya Boltengagen, Haiyue Liu, Martin Hoehne, Markus Rinschen, Bernhard Schermer, Thomas Benzing, Nikolaus Rajewsky, Christine Kocks,[...]. J Am Soc Nephrol 2018
80
11

Fast, sensitive and accurate integration of single-cell data with Harmony.
Ilya Korsunsky, Nghia Millard, Jean Fan, Kamil Slowikowski, Fan Zhang, Kevin Wei, Yuriy Baglaenko, Michael Brenner, Po-Ru Loh, Soumya Raychaudhuri. Nat Methods 2019
653
9

Diabetic Kidney Disease: Challenges, Progress, and Possibilities.
Radica Z Alicic, Michele T Rooney, Katherine R Tuttle. Clin J Am Soc Nephrol 2017
656
9

Droplet barcoding for single-cell transcriptomics applied to embryonic stem cells.
Allon M Klein, Linas Mazutis, Ilke Akartuna, Naren Tallapragada, Adrian Veres, Victor Li, Leonid Peshkin, David A Weitz, Marc W Kirschner. Cell 2015
8

Slide-seq: A scalable technology for measuring genome-wide expression at high spatial resolution.
Samuel G Rodriques, Robert R Stickels, Aleksandrina Goeva, Carly A Martin, Evan Murray, Charles R Vanderburg, Joshua Welch, Linlin M Chen, Fei Chen, Evan Z Macosko. Science 2019
521
8

Understanding the kidney one cell at a time.
Jihwan Park, Chang Linda Liu, Junhyong Kim, Katalin Susztak. Kidney Int 2019
30
26

Decoding myofibroblast origins in human kidney fibrosis.
Christoph Kuppe, Mahmoud M Ibrahim, Jennifer Kranz, Xiaoting Zhang, Susanne Ziegler, Javier Perales-Patón, Jitske Jansen, Katharina C Reimer, James R Smith, Ross Dobie,[...]. Nature 2021
102
8

Single-Cell Profiling of AKI in a Murine Model Reveals Novel Transcriptional Signatures, Profibrotic Phenotype, and Epithelial-to-Stromal Crosstalk.
Valeria Rudman-Melnick, Mike Adam, Andrew Potter, Saagar M Chokshi, Qing Ma, Keri A Drake, Meredith P Schuh, J Matthew Kofron, Prasad Devarajan, S Steven Potter. J Am Soc Nephrol 2020
32
25

Simultaneous epitope and transcriptome measurement in single cells.
Marlon Stoeckius, Christoph Hafemeister, William Stephenson, Brian Houck-Loomis, Pratip K Chattopadhyay, Harold Swerdlow, Rahul Satija, Peter Smibert. Nat Methods 2017
876
7

Renal compartment-specific genetic variation analyses identify new pathways in chronic kidney disease.
Chengxiang Qiu, Shizheng Huang, Jihwan Park, YoSon Park, Yi-An Ko, Matthew J Seasock, Joshua S Bryer, Xiang-Xi Xu, Wen-Chao Song, Matthew Palmer,[...]. Nat Med 2018
96
7

A Single-Cell Atlas of In Vivo Mammalian Chromatin Accessibility.
Darren A Cusanovich, Andrew J Hill, Delasa Aghamirzaie, Riza M Daza, Hannah A Pliner, Joel B Berletch, Galina N Filippova, Xingfan Huang, Lena Christiansen, William S DeWitt,[...]. Cell 2018
248
7

mRNA-Seq whole-transcriptome analysis of a single cell.
Fuchou Tang, Catalin Barbacioru, Yangzhou Wang, Ellen Nordman, Clarence Lee, Nanlan Xu, Xiaohui Wang, John Bodeau, Brian B Tuch, Asim Siddiqui,[...]. Nat Methods 2009
7

Single-cell chromatin accessibility reveals principles of regulatory variation.
Jason D Buenrostro, Beijing Wu, Ulrike M Litzenburger, Dave Ruff, Michael L Gonzales, Michael P Snyder, Howard Y Chang, William J Greenleaf. Nature 2015
900
7

Transcriptomes of major renal collecting duct cell types in mouse identified by single-cell RNA-seq.
Lihe Chen, Jae Wook Lee, Chung-Lin Chou, Anil V Nair, Maria A Battistone, Teodor G Păunescu, Maria Merkulova, Sylvie Breton, Jill W Verlander, Susan M Wall,[...]. Proc Natl Acad Sci U S A 2017
131
7

Visualization and analysis of gene expression in tissue sections by spatial transcriptomics.
Patrik L Ståhl, Fredrik Salmén, Sanja Vickovic, Anna Lundmark, José Fernández Navarro, Jens Magnusson, Stefania Giacomello, Michaela Asp, Jakub O Westholm, Mikael Huss,[...]. Science 2016
738
7

The dynamics and regulators of cell fate decisions are revealed by pseudotemporal ordering of single cells.
Cole Trapnell, Davide Cacchiarelli, Jonna Grimsby, Prapti Pokharel, Shuqiang Li, Michael Morse, Niall J Lennon, Kenneth J Livak, Tarjei S Mikkelsen, John L Rinn. Nat Biotechnol 2014
7


Single cell analysis of the developing mouse kidney provides deeper insight into marker gene expression and ligand-receptor crosstalk.
Alexander N Combes, Belinda Phipson, Kynan T Lawlor, Aude Dorison, Ralph Patrick, Luke Zappia, Richard P Harvey, Alicia Oshlack, Melissa H Little. Development 2019
58
12

The Nuclear Receptor ESRRA Protects from Kidney Disease by Coupling Metabolism and Differentiation.
Poonam Dhillon, Jihwan Park, Carmen Hurtado Del Pozo, Lingzhi Li, Tomohito Doke, Shizheng Huang, Juanjuan Zhao, Hyun Mi Kang, Rojesh Shrestra, Michael S Balzer,[...]. Cell Metab 2021
33
21

clusterProfiler: an R package for comparing biological themes among gene clusters.
Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He. OMICS 2012
7

Single-cell transcriptomics reveals gene expression dynamics of human fetal kidney development.
Mazène Hochane, Patrick R van den Berg, Xueying Fan, Noémie Bérenger-Currias, Esmée Adegeest, Monika Bialecka, Maaike Nieveen, Maarten Menschaart, Susana M Chuva de Sousa Lopes, Stefan Semrau. PLoS Biol 2019
53
13

Single-Cell Transcriptomics Reveal Immune Mechanisms of the Onset and Progression of IgA Nephropathy.
Ying Zheng, Ping Lu, Yiyao Deng, Lu Wen, Yong Wang, Xin Ma, Zhongxin Wang, Lingling Wu, Quan Hong, Shuwei Duan,[...]. Cell Rep 2020
12
58

Complement 7 Is Up-Regulated in Human Early Diabetic Kidney Disease.
Monica Sircar, Ivy A Rosales, Martin K Selig, Dihua Xu, Zsuzsanna K Zsengeller, Isaac E Stillman, Towia A Libermann, S Ananth Karumanchi, Ravi I Thadhani. Am J Pathol 2018
21
33

Mechanisms of Renal Fibrosis.
Benjamin D Humphreys. Annu Rev Physiol 2018
304
6

Tissue transcriptome-driven identification of epidermal growth factor as a chronic kidney disease biomarker.
Wenjun Ju, Viji Nair, Shahaan Smith, Li Zhu, Kerby Shedden, Peter X K Song, Laura H Mariani, Felix H Eichinger, Celine C Berthier, Ann Randolph,[...]. Sci Transl Med 2015
199
6

Current best practices in single-cell RNA-seq analysis: a tutorial.
Malte D Luecken, Fabian J Theis. Mol Syst Biol 2019
429
6


Co-cited is the co-citation frequency, indicating how many articles cite the article together with the query article. Similarity is the co-citation as percentage of the times cited of the query article or the article in the search results, whichever is the lowest. These numbers are calculated for the last 100 citations when articles are cited more than 100 times.