A citation-based method for searching scientific literature

Meenakshi Venkatasubramanian, Kashish Chetal, Daniel J Schnell, Gowtham Atluri, Nathan Salomonis. Bioinformatics 2020
Times Cited: 15







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



Times Cited
  Times     Co-cited
Similarity


Single-cell analysis of mixed-lineage states leading to a binary cell fate choice.
Andre Olsson, Meenakshi Venkatasubramanian, Viren K Chaudhri, Bruce J Aronow, Nathan Salomonis, Harinder Singh, H Leighton Grimes. Nature 2016
267
40

Transcriptomic Analyses Revealed Systemic Alterations in Gene Expression in Circulation and Tumor Microenvironment of Colorectal Cancer Patients.
Hibah Shaath, Salman M Toor, Varun Sasidharan Nair, Eyad Elkord, Nehad M Alajez. Cancers (Basel) 2019
15
33

The sequence read archive.
Rasko Leinonen, Hideaki Sugawara, Martin Shumway. Nucleic Acids Res 2011
33

Integrated Transcriptome and Pathway Analyses Revealed Multiple Activated Pathways in Breast Cancer.
Radhakrishnan Vishnubalaji, Varun Sasidharan Nair, Khalid Ouararhni, Eyad Elkord, Nehad M Alajez. Front Oncol 2019
21
26

GO-Elite: a flexible solution for pathway and ontology over-representation.
Alexander C Zambon, Stan Gaj, Isaac Ho, Kristina Hanspers, Karen Vranizan, Chris T Evelo, Bruce R Conklin, Alexander R Pico, Nathan Salomonis. Bioinformatics 2012
175
26

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
26

cellHarmony: cell-level matching and holistic comparison of single-cell transcriptomes.
Erica A K DePasquale, Daniel Schnell, Phillip Dexheimer, Kyle Ferchen, Stuart Hay, Kashish Chetal, Íñigo Valiente-Alandí, Burns C Blaxall, H Leighton Grimes, Nathan Salomonis. Nucleic Acids Res 2019
25
26

SARS-CoV-2 Cell Entry Depends on ACE2 and TMPRSS2 and Is Blocked by a Clinically Proven Protease Inhibitor.
Markus Hoffmann, Hannah Kleine-Weber, Simon Schroeder, Nadine Krüger, Tanja Herrler, Sandra Erichsen, Tobias S Schiergens, Georg Herrler, Nai-Huei Wu, Andreas Nitsche,[...]. Cell 2020
20

Human haematopoietic stem cell lineage commitment is a continuous process.
Lars Velten, Simon F Haas, Simon Raffel, Sandra Blaszkiewicz, Saiful Islam, Bianca P Hennig, Christoph Hirche, Christoph Lutz, Eike C Buss, Daniel Nowak,[...]. Nat Cell Biol 2017
347
20

Integrated Single-Cell Analysis Maps the Continuous Regulatory Landscape of Human Hematopoietic Differentiation.
Jason D Buenrostro, M Ryan Corces, Caleb A Lareau, Beijing Wu, Alicia N Schep, Martin J Aryee, Ravindra Majeti, Howard Y Chang, William J Greenleaf. Cell 2018
206
20

RNA velocity of single cells.
Gioele La Manno, Ruslan Soldatov, Amit Zeisel, Emelie Braun, Hannah Hochgerner, Viktor Petukhov, Katja Lidschreiber, Maria E Kastriti, Peter Lönnerberg, Alessandro Furlan,[...]. Nature 2018
732
20

Chemoresistance Evolution in Triple-Negative Breast Cancer Delineated by Single-Cell Sequencing.
Charissa Kim, Ruli Gao, Emi Sei, Rachel Brandt, Johan Hartman, Thomas Hatschek, Nicola Crosetto, Theodoros Foukakis, Nicholas E Navin. Cell 2018
317
20

Triple-negative breast cancer.
William D Foulkes, Ian E Smith, Jorge S Reis-Filho. N Engl J Med 2010
20

Mouse models of neutropenia reveal progenitor-stage-specific defects.
David E Muench, Andre Olsson, Kyle Ferchen, Giang Pham, Rachel A Serafin, Somchai Chutipongtanate, Pankaj Dwivedi, Baobao Song, Stuart Hay, Kashish Chetal,[...]. Nature 2020
27
20

Immune responses in COVID-19 and potential vaccines: Lessons learned from SARS and MERS epidemic.
Eakachai Prompetchara, Chutitorn Ketloy, Tanapat Palaga. Asian Pac J Allergy Immunol 2020
667
13

Dipeptidyl peptidase 4 is a functional receptor for the emerging human coronavirus-EMC.
V Stalin Raj, Huihui Mou, Saskia L Smits, Dick H W Dekkers, Marcel A Müller, Ronald Dijkman, Doreen Muth, Jeroen A A Demmers, Ali Zaki, Ron A M Fouchier,[...]. Nature 2013
13


NEAT1 long noncoding RNA and paraspeckle bodies modulate HIV-1 posttranscriptional expression.
Quan Zhang, Chia-Yen Chen, Venkat S R K Yedavalli, Kuan-Teh Jeang. mBio 2013
229
13

Imbalanced Host Response to SARS-CoV-2 Drives Development of COVID-19.
Daniel Blanco-Melo, Benjamin E Nilsson-Payant, Wen-Chun Liu, Skyler Uhl, Daisy Hoagland, Rasmus Møller, Tristan X Jordan, Kohei Oishi, Maryline Panis, David Sachs,[...]. Cell 2020
13

Angiotensin-converting enzyme 2 is a functional receptor for the SARS coronavirus.
Wenhui Li, Michael J Moore, Natalya Vasilieva, Jianhua Sui, Swee Kee Wong, Michael A Berne, Mohan Somasundaran, John L Sullivan, Katherine Luzuriaga, Thomas C Greenough,[...]. Nature 2003
13

Transcriptional Heterogeneity and Lineage Commitment in Myeloid Progenitors.
Franziska Paul, Ya'ara Arkin, Amir Giladi, Diego Adhemar Jaitin, Ephraim Kenigsberg, Hadas Keren-Shaul, Deborah Winter, David Lara-Astiaso, Meital Gury, Assaf Weiner,[...]. Cell 2015
492
13

Dimensionality reduction for visualizing single-cell data using UMAP.
Etienne Becht, Leland McInnes, John Healy, Charles-Antoine Dutertre, Immanuel W H Kwok, Lai Guan Ng, Florent Ginhoux, Evan W Newell. Nat Biotechnol 2018
918
13

Elucidation of the phenotypic, functional, and molecular topography of a myeloerythroid progenitor cell hierarchy.
Cornelis J H Pronk, Derrick J Rossi, Robert Månsson, Joanne L Attema, Gudmundur Logi Norddahl, Charles Kwok Fai Chan, Mikael Sigvardsson, Irving L Weissman, David Bryder. Cell Stem Cell 2007
414
13

A single-cell resolution map of mouse hematopoietic stem and progenitor cell differentiation.
Sonia Nestorowa, Fiona K Hamey, Blanca Pijuan Sala, Evangelia Diamanti, Mairi Shepherd, Elisa Laurenti, Nicola K Wilson, David G Kent, Berthold Göttgens. Blood 2016
257
13


Single-cell landscape of bronchoalveolar immune cells in patients with COVID-19.
Mingfeng Liao, Yang Liu, Jing Yuan, Yanling Wen, Gang Xu, Juanjuan Zhao, Lin Cheng, Jinxiu Li, Xin Wang, Fuxiang Wang,[...]. Nat Med 2020
899
13

DoubletDecon: Deconvoluting Doublets from Single-Cell RNA-Sequencing Data.
Erica A K DePasquale, Daniel J Schnell, Pieter-Jan Van Camp, Íñigo Valiente-Alandí, Burns C Blaxall, H Leighton Grimes, Harinder Singh, Nathan Salomonis. Cell Rep 2019
44
13

Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China.
Chaolin Huang, Yeming Wang, Xingwang Li, Lili Ren, Jianping Zhao, Yi Hu, Li Zhang, Guohui Fan, Jiuyang Xu, Xiaoying Gu,[...]. Lancet 2020
13

MicroRNA Expression Profiling on Paired Primary and Lymph Node Metastatic Breast Cancer Revealed Distinct microRNA Profile Associated With LNM.
Ramesh Elango, Khalid A Alsaleh, Radhakrishnan Vishnubalaji, Muthurangan Manikandan, Arwa M Ali, Nashwa Abd El-Aziz, Abdulrhaman Altheyab, Ammar Al-Rikabi, Musaad Alfayez, Abdullah Aldahmash,[...]. Front Oncol 2020
12
16

A network-based analysis of systemic inflammation in humans.
Steve E Calvano, Wenzhong Xiao, Daniel R Richards, Ramon M Felciano, Henry V Baker, Raymond J Cho, Richard O Chen, Bernard H Brownstein, J Perren Cobb, S Kevin Tschoeke,[...]. Nature 2005
13

AltAnalyze and DomainGraph: analyzing and visualizing exon expression data.
Dorothea Emig, Nathan Salomonis, Jan Baumbach, Thomas Lengauer, Bruce R Conklin, Mario Albrecht. Nucleic Acids Res 2010
198
13

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
739
13

Lineage-specific and single-cell chromatin accessibility charts human hematopoiesis and leukemia evolution.
M Ryan Corces, Jason D Buenrostro, Beijing Wu, Peyton G Greenside, Steven M Chan, Julie L Koenig, Michael P Snyder, Jonathan K Pritchard, Anshul Kundaje, William J Greenleaf,[...]. Nat Genet 2016
433
13

Molecular transitions in early progenitors during human cord blood hematopoiesis.
Shiwei Zheng, Efthymia Papalexi, Andrew Butler, William Stephenson, Rahul Satija. Mol Syst Biol 2018
64
13

A comprehensive single cell transcriptional landscape of human hematopoietic progenitors.
Danilo Pellin, Mariana Loperfido, Cristina Baricordi, Samuel L Wolock, Annita Montepeloso, Olga K Weinberg, Alessandra Biffi, Allon M Klein, Luca Biasco. Nat Commun 2019
80
13

Aging Human Hematopoietic Stem Cells Manifest Profound Epigenetic Reprogramming of Enhancers That May Predispose to Leukemia.
Emmalee R Adelman, Hsuan-Ting Huang, Alejandro Roisman, André Olsson, Antonio Colaprico, Tingting Qin, R Coleman Lindsley, Rafael Bejar, Nathan Salomonis, H Leighton Grimes,[...]. Cancer Discov 2019
53
13

Single-cell analysis reveals the continuum of human lympho-myeloid progenitor cells.
Dimitris Karamitros, Bilyana Stoilova, Zahra Aboukhalil, Fiona Hamey, Andreas Reinisch, Marina Samitsch, Lynn Quek, Georg Otto, Emmanouela Repapi, Jessica Doondeea,[...]. Nat Immunol 2018
88
13

Comprehensive genomic analysis identifies novel subtypes and targets of triple-negative breast cancer.
Matthew D Burstein, Anna Tsimelzon, Graham M Poage, Kyle R Covington, Alejandro Contreras, Suzanne A W Fuqua, Michelle I Savage, C Kent Osborne, Susan G Hilsenbeck, Jenny C Chang,[...]. Clin Cancer Res 2015
544
13

Identification of human triple-negative breast cancer subtypes and preclinical models for selection of targeted therapies.
Brian D Lehmann, Joshua A Bauer, Xi Chen, Melinda E Sanders, A Bapsi Chakravarthy, Yu Shyr, Jennifer A Pietenpol. J Clin Invest 2011
13

Molecular portraits of human breast tumours.
C M Perou, T Sørlie, M B Eisen, M van de Rijn, S S Jeffrey, C A Rees, J R Pollack, D T Ross, H Johnsen, L A Akslen,[...]. Nature 2000
13

Triple-negative breast cancer: clinical features and patterns of recurrence.
Rebecca Dent, Maureen Trudeau, Kathleen I Pritchard, Wedad M Hanna, Harriet K Kahn, Carol A Sawka, Lavina A Lickley, Ellen Rawlinson, Ping Sun, Steven A Narod. Clin Cancer Res 2007
13


The bone marrow microenvironment at single-cell resolution.
Anastasia N Tikhonova, Igor Dolgalev, Hai Hu, Kishor K Sivaraj, Edlira Hoxha, Álvaro Cuesta-Domínguez, Sandra Pinho, Ilseyar Akhmetzyanova, Jie Gao, Matthew Witkowski,[...]. Nature 2019
271
13

A Cellular Taxonomy of the Bone Marrow Stroma in Homeostasis and Leukemia.
Ninib Baryawno, Dariusz Przybylski, Monika S Kowalczyk, Youmna Kfoury, Nicolas Severe, Karin Gustafsson, Konstantinos D Kokkaliaris, Francois Mercier, Marcin Tabaka, Matan Hofree,[...]. Cell 2019
247
13

Kinetics of adult hematopoietic stem cell differentiation in vivo.
Samik Upadhaya, Catherine M Sawai, Efthymia Papalexi, Ali Rashidfarrokhi, Geunhyo Jang, Pratip Chattopadhyay, Rahul Satija, Boris Reizis. J Exp Med 2018
30
13

Tumor-associated lymphocytes as an independent predictor of response to neoadjuvant chemotherapy in breast cancer.
Carsten Denkert, Sibylle Loibl, Aurelia Noske, Marc Roller, Berit Maria Müller, Martina Komor, Jan Budczies, Silvia Darb-Esfahani, Ralf Kronenwett, Claus Hanusch,[...]. J Clin Oncol 2010
13

Tumor-Infiltrating Lymphocytes in Triple Negative Breast Cancer: The Future of Immune Targeting.
Paula García-Teijido, María Luque Cabal, Ignacio Peláez Fernández, Yolanda Fernández Pérez. Clin Med Insights Oncol 2016
83
13

Defining a Cancer Dependency Map.
Aviad Tsherniak, Francisca Vazquez, Phil G Montgomery, Barbara A Weir, Gregory Kryukov, Glenn S Cowley, Stanley Gill, William F Harrington, Sasha Pantel, John M Krill-Burger,[...]. Cell 2017
663
13

Slingshot: cell lineage and pseudotime inference for single-cell transcriptomics.
Kelly Street, Davide Risso, Russell B Fletcher, Diya Das, John Ngai, Nir Yosef, Elizabeth Purdom, Sandrine Dudoit. BMC Genomics 2018
374
13

Single-cell CUT&Tag analysis of chromatin modifications in differentiation and tumor progression.
Steven J Wu, Scott N Furlan, Anca B Mihalas, Hatice S Kaya-Okur, Abdullah H Feroze, Samuel N Emerson, Ye Zheng, Kalee Carson, Patrick J Cimino, C Dirk Keene,[...]. Nat Biotechnol 2021
12
16


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.