A citation-based method for searching scientific literature

Yan Xu, Takako Mizuno, Anusha Sridharan, Yina Du, Minzhe Guo, Jie Tang, Kathryn A Wikenheiser-Brokamp, Anne-Karina T Perl, Vincent A Funari, Jason J Gokey, Barry R Stripp, Jeffrey A Whitsett. JCI Insight 2016
Times Cited: 240







List of co-cited articles
1130 articles co-cited >1



Times Cited
  Times     Co-cited
Similarity


Exome sequencing links mutations in PARN and RTEL1 with familial pulmonary fibrosis and telomere shortening.
Bridget D Stuart, Jungmin Choi, Samir Zaidi, Chao Xing, Brody Holohan, Rui Chen, Mihwa Choi, Pooja Dharwadkar, Fernando Torres, Carlos E Girod,[...]. Nat Genet 2015
238
9

Detection and quantification of epithelial progenitor cell populations in human healthy and IPF lungs.
N F Smirnova, A C Schamberger, S Nayakanti, R Hatz, J Behr, O Eickelberg. Respir Res 2016
40
22

Thyroid hormone inhibits lung fibrosis in mice by improving epithelial mitochondrial function.
Guoying Yu, Argyris Tzouvelekis, Rong Wang, Jose D Herazo-Maya, Gabriel H Ibarra, Anup Srivastava, Joao Pedro Werneck de Castro, Giuseppe DeIuliis, Farida Ahangari, Tony Woolard,[...]. Nat Med 2018
129
9

Hyaluronan and TLR4 promote surfactant-protein-C-positive alveolar progenitor cell renewal and prevent severe pulmonary fibrosis in mice.
Jiurong Liang, Yanli Zhang, Ting Xie, Ningshan Liu, Huaiyong Chen, Yan Geng, Adrianne Kurkciyan, Jessica Monterrosa Mena, Barry R Stripp, Dianhua Jiang,[...]. Nat Med 2016
131
9

A molecular cell atlas of the human lung from single-cell RNA sequencing.
Kyle J Travaglini, Ahmad N Nabhan, Lolita Penland, Rahul Sinha, Astrid Gillich, Rene V Sit, Stephen Chang, Stephanie D Conley, Yasuo Mori, Jun Seita,[...]. Nature 2020
119
9

The Human Lung Cell Atlas: A High-Resolution Reference Map of the Human Lung in Health and Disease.
Herbert B Schiller, Daniel T Montoro, Lukas M Simon, Emma L Rawlins, Kerstin B Meyer, Maximilian Strunz, Felipe A Vieira Braga, Wim Timens, Gerard H Koppelman, G R Scott Budinger,[...]. Am J Respir Cell Mol Biol 2019
61
14

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2.
Michael I Love, Wolfgang Huber, Simon Anders. Genome Biol 2014
8

Pulmonary alveolar type I cell population consists of two distinct subtypes that differ in cell fate.
Yanjie Wang, Zan Tang, Huanwei Huang, Jiao Li, Zheng Wang, Yuanyuan Yu, Chengwei Zhang, Juan Li, Huaping Dai, Fengchao Wang,[...]. Proc Natl Acad Sci U S A 2018
67
11

Genetic variants associated with idiopathic pulmonary fibrosis susceptibility and mortality: a genome-wide association study.
Imre Noth, Yingze Zhang, Shwu-Fan Ma, Carlos Flores, Mathew Barber, Yong Huang, Steven M Broderick, Michael S Wade, Pirro Hysi, Joseph Scuirba,[...]. Lancet Respir Med 2013
300
8

Emerging therapies for idiopathic pulmonary fibrosis, a progressive age-related disease.
Ana L Mora, Mauricio Rojas, Annie Pardo, Moises Selman. Nat Rev Drug Discov 2017
128
8

A novel dyskerin (DKC1) mutation is associated with familial interstitial pneumonia.
Jonathan A Kropski, Daphne B Mitchell, Cheryl Markin, Vasiliy V Polosukhin, Leena Choi, Joyce E Johnson, William E Lawson, John A Phillips, Joy D Cogan, Timothy S Blackwell,[...]. Chest 2014
76
10

Ectopic respiratory epithelial cell differentiation in bronchiolised distal airspaces in idiopathic pulmonary fibrosis.
Laurent Plantier, Bruno Crestani, Susan E Wert, Monique Dehoux, Barbara Zweytick, Andreas Guenther, Jeffrey A Whitsett. Thorax 2011
103
8

Epithelial endoplasmic reticulum stress and apoptosis in sporadic idiopathic pulmonary fibrosis.
Martina Korfei, Clemens Ruppert, Poornima Mahavadi, Ingrid Henneke, Philipp Markart, Miriam Koch, Gyoergy Lang, Ludger Fink, Rainer-Maria Bohle, Werner Seeger,[...]. Am J Respir Crit Care Med 2008
333
8

Endoplasmic reticulum stress enhances fibrotic remodeling in the lungs.
William E Lawson, Dong-Sheng Cheng, Amber L Degryse, Harikrishna Tanjore, Vasiliy V Polosukhin, Xiaochuan C Xu, Dawn C Newcomb, Brittany R Jones, Juan Roldan, Kirk B Lane,[...]. Proc Natl Acad Sci U S A 2011
223
8

Single cell RNA analysis identifies cellular heterogeneity and adaptive responses of the lung at birth.
Minzhe Guo, Yina Du, Jason J Gokey, Samriddha Ray, Sheila M Bell, Mike Adam, Parvathi Sudha, Anne Karina Perl, Hitesh Deshmukh, S Steven Potter,[...]. Nat Commun 2019
61
13

Telomere shortening in familial and sporadic pulmonary fibrosis.
Jennifer T Cronkhite, Chao Xing, Ganesh Raghu, Kelly M Chin, Fernando Torres, Randall L Rosenblatt, Christine Kim Garcia. Am J Respir Crit Care Med 2008
317
8

Repair and regeneration of the respiratory system: complexity, plasticity, and mechanisms of lung stem cell function.
Brigid L M Hogan, Christina E Barkauskas, Harold A Chapman, Jonathan A Epstein, Rajan Jain, Connie C W Hsia, Laura Niklason, Elizabeth Calle, Andrew Le, Scott H Randell,[...]. Cell Stem Cell 2014
419
8

Endoplasmic reticulum stress in alveolar epithelial cells is prominent in IPF: association with altered surfactant protein processing and herpesvirus infection.
William E Lawson, Peter F Crossno, Vasiliy V Polosukhin, Juan Roldan, Dong-Sheng Cheng, Kirk B Lane, Thomas R Blackwell, Carol Xu, Cheryl Markin, Lorraine B Ware,[...]. Am J Physiol Lung Cell Mol Physiol 2008
282
8

Single-Cell Reconstruction of Human Basal Cell Diversity in Normal and Idiopathic Pulmonary Fibrosis Lungs.
Gianni Carraro, Apoorva Mulay, Changfu Yao, Takako Mizuno, Bindu Konda, Martin Petrov, Daniel Lafkas, Joe R Arron, Cory M Hogaboam, Peter Chen,[...]. Am J Respir Crit Care Med 2020
26
30

Integrated Genomics Reveals Convergent Transcriptomic Networks Underlying Chronic Obstructive Pulmonary Disease and Idiopathic Pulmonary Fibrosis.
Rebecca L Kusko, John F Brothers, John Tedrow, Kusum Pandit, Luai Huleihel, Catalina Perdomo, Gang Liu, Brenda Juan-Guardela, Daniel Kass, Sherry Zhang,[...]. Am J Respir Crit Care Med 2016
60
11

In Vitro Induction and In Vivo Engraftment of Lung Bud Tip Progenitor Cells Derived from Human Pluripotent Stem Cells.
Alyssa J Miller, David R Hill, Melinda S Nagy, Yoshiro Aoki, Briana R Dye, Alana M Chin, Sha Huang, Felix Zhu, Eric S White, Vibha Lama,[...]. Stem Cell Reports 2018
73
9

ATF3 represses PINK1 gene transcription in lung epithelial cells to control mitochondrial homeostasis.
Marta Bueno, Judith Brands, Lauren Voltz, Kaitlin Fiedler, Brenton Mays, Claudette St Croix, John Sembrat, Rama K Mallampalli, Mauricio Rojas, Ana L Mora. Aging Cell 2018
47
14

Mitochondria in the spotlight of aging and idiopathic pulmonary fibrosis.
Ana L Mora, Marta Bueno, Mauricio Rojas. J Clin Invest 2017
97
7

Alveolar progenitor and stem cells in lung development, renewal and cancer.
Tushar J Desai, Douglas G Brownfield, Mark A Krasnow. Nature 2014
452
7

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles.
Aravind Subramanian, Pablo Tamayo, Vamsi K Mootha, Sayan Mukherjee, Benjamin L Ebert, Michael A Gillette, Amanda Paulovich, Scott L Pomeroy, Todd R Golub, Eric S Lander,[...]. Proc Natl Acad Sci U S A 2005
7

Genetic defects in surfactant protein A2 are associated with pulmonary fibrosis and lung cancer.
Yongyu Wang, Phillip J Kuan, Chao Xing, Jennifer T Cronkhite, Fernando Torres, Randall L Rosenblatt, J Michael DiMaio, Lisa N Kinch, Nick V Grishin, Christine Kim Garcia. Am J Hum Genet 2009
283
7

NADPH Oxidase 4 (Nox4) Suppresses Mitochondrial Biogenesis and Bioenergetics in Lung Fibroblasts via a Nuclear Factor Erythroid-derived 2-like 2 (Nrf2)-dependent Pathway.
Karen Bernard, Naomi J Logsdon, Veronica Miguel, Gloria A Benavides, Jianhua Zhang, A Brent Carter, Victor M Darley-Usmar, Victor J Thannickal. J Biol Chem 2017
58
12

Macrophage Akt1 Kinase-Mediated Mitophagy Modulates Apoptosis Resistance and Pulmonary Fibrosis.
Jennifer L Larson-Casey, Jessy S Deshane, Alan J Ryan, Victor J Thannickal, A Brent Carter. Immunity 2016
158
7

Expression of apoptotic and antiapoptotic markers in epithelial cells in idiopathic pulmonary fibrosis.
Maria Plataki, Anastassios V Koutsopoulos, Katherine Darivianaki, George Delides, Nikolaos M Siafakas, Demosthenes Bouros. Chest 2005
158
7

p63(+)Krt5(+) distal airway stem cells are essential for lung regeneration.
Wei Zuo, Ting Zhang, Daniel Zheng'An Wu, Shou Ping Guan, Audrey-Ann Liew, Yusuke Yamamoto, Xia Wang, Siew Joo Lim, Matthew Vincent, Mark Lessard,[...]. Nature 2015
248
7

Diversity of Interstitial Lung Fibroblasts Is Regulated by Platelet-Derived Growth Factor Receptor α Kinase Activity.
Jenna Green, Mehari Endale, Herbert Auer, Anne-Karina T Perl. Am J Respir Cell Mol Biol 2016
53
13

An atlas of the aging lung mapped by single cell transcriptomics and deep tissue proteomics.
Ilias Angelidis, Lukas M Simon, Isis E Fernandez, Maximilian Strunz, Christoph H Mayr, Flavia R Greiffo, George Tsitsiridis, Meshal Ansari, Elisabeth Graf, Tim-Matthias Strom,[...]. Nat Commun 2019
117
7

Reversal of persistent fibrosis in aging by targeting Nox4-Nrf2 redox imbalance.
Louise Hecker, Naomi J Logsdon, Deepali Kurundkar, Ashish Kurundkar, Karen Bernard, Thomas Hock, Eric Meldrum, Yan Y Sanders, Victor J Thannickal. Sci Transl Med 2014
368
7

Spatial reconstruction of single-cell gene expression data.
Rahul Satija, Jeffrey A Farrell, David Gennert, Alexander F Schier, Aviv Regev. Nat Biotechnol 2015
7

An official American Thoracic Society/European Respiratory Society statement: Update of the international multidisciplinary classification of the idiopathic interstitial pneumonias.
William D Travis, Ulrich Costabel, David M Hansell, Talmadge E King, David A Lynch, Andrew G Nicholson, Christopher J Ryerson, Jay H Ryu, Moisés Selman, Athol U Wells,[...]. Am J Respir Crit Care Med 2013
7

Clinical course and prediction of survival in idiopathic pulmonary fibrosis.
Brett Ley, Harold R Collard, Talmadge E King. Am J Respir Crit Care Med 2011
844
7

Mice with Pulmonary Fibrosis Driven by Telomere Dysfunction.
Juan M Povedano, Paula Martinez, Juana M Flores, Francisca Mulero, Maria A Blasco. Cell Rep 2015
116
7

An SFTPC BRICHOS mutant links epithelial ER stress and spontaneous lung fibrosis.
Jeremy Katzen, Brandie D Wagner, Alessandro Venosa, Meghan Kopp, Yaniv Tomer, Scott J Russo, Alvis C Headen, Maria C Basil, James M Stark, Surafel Mulugeta,[...]. JCI Insight 2019
39
17

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
6

STAR: ultrafast universal RNA-seq aligner.
Alexander Dobin, Carrie A Davis, Felix Schlesinger, Jorg Drenkow, Chris Zaleski, Sonali Jha, Philippe Batut, Mark Chaisson, Thomas R Gingeras. Bioinformatics 2013
6

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
6


Long-term expansion of alveolar stem cells derived from human iPS cells in organoids.
Yuki Yamamoto, Shimpei Gotoh, Yohei Korogi, Masahide Seki, Satoshi Konishi, Satoshi Ikeo, Naoyuki Sone, Tadao Nagasaki, Hisako Matsumoto, Shigeo Muro,[...]. Nat Methods 2017
86
6

Heterozygosity for a surfactant protein C gene mutation associated with usual interstitial pneumonitis and cellular nonspecific interstitial pneumonitis in one kindred.
Alan Q Thomas, Kirk Lane, John Phillips, Melissa Prince, Cheryl Markin, Marcy Speer, David A Schwartz, Radhika Gaddipati, Annis Marney, Joyce Johnson,[...]. Am J Respir Crit Care Med 2002
418
6


CCR10+ epithelial cells from idiopathic pulmonary fibrosis lungs drive remodeling.
David M Habiel, Milena S Espindola, Isabelle C Jones, Ana Lucia Coelho, Barry Stripp, Cory M Hogaboam. JCI Insight 2018
16
37

Analysis of protein-altering variants in telomerase genes and their association with MUC5B common variant status in patients with idiopathic pulmonary fibrosis: a candidate gene sequencing study.
Amy Dressen, Alexander R Abbas, Christopher Cabanski, Janina Reeder, Thirumalai R Ramalingam, Margaret Neighbors, Tushar R Bhangale, Matthew J Brauer, Julie Hunkapiller, Jens Reeder,[...]. Lancet Respir Med 2018
62
9

The hallmarks of aging.
Carlos López-Otín, Maria A Blasco, Linda Partridge, Manuel Serrano, Guido Kroemer. Cell 2013
6


SIRT3 deficiency promotes lung fibrosis by augmenting alveolar epithelial cell mitochondrial DNA damage and apoptosis.
Renea P Jablonski, Seok-Jo Kim, Paul Cheresh, David B Williams, Luisa Morales-Nebreda, Yuan Cheng, Anjana Yeldandi, Sangeeta Bhorade, Annie Pardo, Moises Selman,[...]. FASEB J 2017
56
10


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.