pypi: CellNet | Projects | Ecosyste.ms: Papers

10.1016/j.isci.2020.101354

Network Approaches for Dissecting the Immune System
Cited by: 25
Author(s): Hao Shi, Koon-Kiu Yan, Liang Ding, Chenxi Qian, Hongbo Chi, Jiyang Yu
Software Mentions: 7
Published: over 4 years ago

Identification of pathological transcription in autosomal dominant polycystic kidney disease epithelia
Cited by: 1
Author(s): Sebastian Friedrich, Hannah Müller, Caroline Riesterer, Hannah Schüller, Katja Friedrich, Carlotta Leonie Wörner, Tilman Busch, Amandine Viau, E. Wolfgang Kuehn, Michael Köttgen, Alexis Hofherr
Software Mentions: 6
Published: over 3 years ago

10.1038/s41598-019-38798-y

Cell Identity Codes: Understanding Cell Identity from Gene Expression Profiles using Deep Neural Networks
Cited by: 10
Author(s): Farzad Abdolhosseini, Behrooz Azarkhalili, Abbas Maazallahi, Aryan Kamal, Seyed Abolfazl Motahari, Ali Sharifi-Zarchi, Hamidreza Chitsaz
Software Mentions: 6
Published: almost 6 years ago

10.18632/oncotarget.23748

Use of deep neural network ensembles to identify embryonic-fetal transition markers: repression of <i>COX7A1</i> in embryonic and cancer cells
Cited by: 27
Author(s): Michael West, Ivan Labat, Hal Sternberg, Dana Larocca, Igor O. Nasonkin, Karen Chapman, Ratnesh Singh, Eugene Makarev, Alex Aliper, Andrey Kazennov, Andrey Alekseenko, Nikolai Shuvalov, Evgenia Cheskidova, Aleksandr Alekseev, Artemov Av, Evgeny Putin, Polina Mamoshina, Nikita Pryanichnikov, Jacob Larocca, Karen A. F. Copeland, Evgeny Izumchenko, Mikhail Korzinkin, Alex Zhavoronkov
Software Mentions: 5
Published: almost 7 years ago

10.15252/embj.2018100003

A common molecular logic determines embryonic stem cell self‐renewal and reprogramming
Cited by: 31
Author(s): Sara‐Jane Dunn, Meng Amy Li, Elena Carbognin, Austin Smith, Graziano Martello
Software Mentions: 4
Published: about 6 years ago

10.7554/eLife.47013

An evolutionary recent IFN/IL-6/CEBP axis is linked to monocyte expansion and tuberculosis severity in humans
Cited by: 27
Author(s): Murilo Delgobo, Daniel A G B Mendes, Edgar Kozlova, Edroaldo Lummertz da Rocha, Gabriela F. Rodrigues-Luiz, Lucas Mascarin, Greicy Brisa Malaquias Dias, Daniel de Oliveira Patricio, Tim Dierckx, Maíra A. Bicca, G Bretton, Yonne Karoline Tenório de Menezes, Márick R Starick, Darcita Büerger Rovaris, Joanita Del Moral, Daniel Santos Mansur, Johan Van Weyenbergh, André Báfica
Software Mentions: 4
Published: about 5 years ago

10.1186/s13073-016-0310-3

Reconstruction of gene regulatory networks reveals chromatin remodelers and key transcription factors in tumorigenesis
Cited by: 18
Author(s): Valeriya Malysheva, Marco Antonio Mendoza-Parra, Mohamed-Ashick M. Saleem, Hinrich Gronemeyer
Software Mentions: 3
Published: over 8 years ago

10.1242/dmm.039321

Modeling blood diseases with human induced pluripotent stem cells
Cited by: 23
Author(s): Maria Georgomanoli, Eirini P. Papapetrou
Software Mentions: 3
Published: over 5 years ago

10.1038/s41598-021-89550-4

Generation and characterization of iPSC-derived renal proximal tubule-like cells with extended stability
Cited by: 19
Author(s): Vidya Chandrasekaran, Giada Carta, Daniel Da Costa Pereira, Rajinder K. Gupta, Cormac D. Murphy, Elisabeth Feifel, Georg Kern, Judith Lechner, Anna Lina Cavallo, Shailesh Kumar Gupta, Florian Caiment, Jos Kleinjans, Gerhard Gstraunthaler, Paul Jennings, Anja Wilmes
Software Mentions: 3
Published: over 3 years ago

10.12688/f1000research.15271.1

Regulatory network characterization in development: challenges and opportunities
Cited by: 4
Author(s): Guangdun Peng, Jing‐Dong J. Han
Software Mentions: 2
Published: over 6 years ago

10.1038/srep38290

Small molecules increase direct neural conversion of human fibroblasts
Cited by: 47
Author(s): Ulrich Pfisterer, Fredrik Ek, Stefan Lang, Shamit Soneji, Roger Olsson, Malin Parmar
Software Mentions: 2
Published: about 8 years ago

10.1038/s41598-017-10131-5

Screening and identification of critical transcription factors involved in the protection of cardiomyocytes against hydrogen peroxide-induced damage by Yixin-shu
Cited by: 12
Author(s): Jingjing Zhang, Yun Geng, Feifei Guo, Fangbo Zhang, Ming‐Wei Liu, Lei Song, Yingqun Ma, Defeng Li, Yi Zhang, Haiyu Xu, Hongjun Yang
Software Mentions: 2
Published: about 7 years ago

10.3389/fgene.2019.00294

Network Medicine in the Age of Biomedical Big Data
Cited by: 119
Author(s): Abhijeet R. Sonawane, Scott T. Weiss, Kimberly Glass, Amitabh Sharma
Software Mentions: 2
Published: over 5 years ago

10.1007/s00204-016-1741-8

Definition of transcriptome-based indices for quantitative characterization of chemically disturbed stem cell development: introduction of the STOP-Toxukn and STOP-Toxukk tests
Cited by: 47
Author(s): Vaibhav Shinde, Lisa Hoelting, Sureshkumar Perumal Srinivasan, Johannes Meisig, Kesavan Meganathan, Smita Jagtap, Marianna Grinberg, Julia Liebing, Nils Bluethgen, Jörg Rahnenführer, Eugen Rempel, Regina Stoeber, Stefan Schildknecht, Sunniva Förster, Patrício Godoy, Christoph van Thriel, John Antonydas Gaspar, Jürgen Hescheler, Tanja Waldmann, Jan G. Hengstler, Marcel Leist, Agapios Sachinidis
Software Mentions: 2
Published: over 8 years ago

10.1186/s13059-016-1136-4

Allele-specific analysis of cell fusion-mediated pluripotent reprograming reveals distinct and predictive susceptibilities of human X-linked genes to reactivation
Cited by: 12
Author(s): Irene Cantone, Gopuraja Dharmalingam, Yi‐Wah Chan, Anne-Céline Kohler, Boris Lenhard, Matthias Merkenschlager, Amanda G. Fisher
Software Mentions: 2
Published: almost 8 years ago

10.1007/s00204-020-02937-6

Comparing in vitro human liver models to in vivo human liver using RNA-Seq
Cited by: 37
Author(s): Rajinder K. Gupta, Yannick Schrooders, Duncan Hauser, Marcel van Herwijnen, Wiebke Albrecht, Bas ter Braak, Tim Brecklinghaus, José V. Castell, Leroy Elenschneider, Sylvia Escher, Patrick Guye, Jan G. Hengstler, Ahmed Ghallab, Tanja Hansen, Marcel Leist, Richard Maclennan, Wolfgang Moritz, Laia Tolosa, Tine Tricot, Cathérine Verfaillie, Paul Walker, Bob van de Water, Jos Kleinjans, Florian Caiment
Software Mentions: 2
Published: about 4 years ago

10.1007/s00204-016-1761-4

Gene network activity in cultivated primary hepatocytes is highly similar to diseased mammalian liver tissue
Cited by: 87
Author(s): Patrício Godoy, Agata Widera, Wolfgang Schmidt‐Heck, Gisela Campos, Christoph Meyer, Cristina Cadenas, Raymond Reif, Regina Stöber, Seddik Hammad, Larissa Pütter, Kathrin Gianmoena, Rosemarie Marchan, Ahmed Ghallab, Karolina Edlund, Andreas K. Nüssler, Wolfgang E. Thasler, Georg Damm, Daniel Seehofer, Thomas S. Weiss, Olaf Dirsch, Uta Dahmen, Rolf Gebhardt, Umesh Chaudhari, Kesavan Meganathan, Agapios Sachinidis, Jens M. Kelm, Ute Hofmann, René P. Zahedi, Reinhard Guthke, Nils Blüthgen, Steven Dooley, Jan G. Hengstler
Software Mentions: 2
Published: over 8 years ago

10.1016/j.stemcr.2016.07.016

Mapping the Cell-Surface N-Glycoproteome of Human Hepatocytes Reveals Markers for Selecting a Homogeneous Population of iPSC-Derived Hepatocytes
Cited by: 42
Author(s): Sunil K. Mallanna, Max A. Cayo, Kirk Twaroski, Rebekah L. Gundry, Stephen A. Duncan
Software Mentions: 1
Published: over 8 years ago

10.1016/j.stemcr.2015.10.016

Recombinant Laminins Drive the Differentiation and Self-Organization of hESC-Derived Hepatocytes
Cited by: 118
Author(s): Kate Cameron, Rosanne Tan, Wolfgang Schmidt‐Heck, Gisela Campos, Marcus J. Lyall, Yu Wang, Baltasar Lucendo‐Villarin, Dagmara Szkolnicka, Nicola Bates, Susan J. Kimber, Jan G. Hengstler, Patrício Godoy, Stuart J. Forbes, David C. Hay
Software Mentions: 1
Published: about 9 years ago

10.1186/s13287-016-0449-2

Comparison of a teratogenic transcriptome-based predictive test based on human embryonic versus inducible pluripotent stem cells
Cited by: 31
Author(s): Vaibhav Shinde, Sureshkumar Perumal Srinivasan, Margit Henry, Tamara Rotshteyn, Jürgen Hescheler, Jörg Rahnenführer, Marianna Grinberg, Johannes Meisig, Nils Blüthgen, Tanja Waldmann, Marcel Leist, Jan G. Hengstler, Agapios Sachinidis
Software Mentions: 1
Published: about 8 years ago

10.1186/s13287-020-01914-1

Hepatocyte-like cells derived from human induced pluripotent stem cells using small molecules: implications of a transcriptomic study
Cited by: 16
Author(s): Xiugong Gao, Rong Li, Patrick Cahan, Yang Zhao, Jeffrey J. Yourick, Robert L. Sprando
Software Mentions: 1
Published: over 4 years ago

10.1186/s12859-019-2699-3

CellSim: a novel software to calculate cell similarity and identify their co-regulation networks
Cited by: 1
Author(s): Leijie Li, Dongxue Che, Xiaodan Wang, Peng Zhang, Siddiq Ur Rahman, Jun Zhao, Jinxin Yu, Shiheng Tao, Hui Lu, Mingzhi Liao
Software Mentions: 1
Published: almost 6 years ago

10.3390/ijms18010037

Neuroblastoma, a Paradigm for Big Data Science in Pediatric Oncology
Cited by: 38
Author(s): Brittany M. Salazar, Emily A. Balczewski, Choong Yong Ung, Shizhen Zhu
Software Mentions: 1
Published: about 8 years ago

10.3390/cells9071650

Radiation Response of Murine Embryonic Stem Cells
Cited by: 6
Author(s): Christine E. Hellweg, Vaibhav Shinde, Sureshkumar Perumal Srinivasan, Margit Henry, Tamara Rotshteyn, Christa Baumstark‐Khan, C. Schmitz, Sebastian Feles, Luis F. Spitta, Ruth Hemmersbach, Jürgen Hescheler, Agapios Sachinidis
Software Mentions: 1
Published: over 4 years ago

10.3390/cells8101141

Impact of Diabetic Stress Conditions on Renal Cell Metabolome
Cited by: 5
Author(s): Simon Lagies, Roman Pichler, Tillmann Bork, Michael M. Kaminski, Kevin Troendle, Stefan Zimmermann, Tobias B. Huber, Gerd Walz, Soeren S. Lienkamp, Bernd Kammerer
Software Mentions: 1
Published: over 5 years ago

10.3390/cells8101189

Experimental and Computational Approaches to Direct Cell Reprogramming: Recent Advancement and Future Challenges
Cited by: 7
Author(s): Rihab Gam, Min Kyung Sung, Arun Prasad Pandurangan
Software Mentions: 1
Published: about 5 years ago

10.1038/s41422-020-0293-x

Generation of human hepatocytes from extended pluripotent stem cells
Cited by: 19
Author(s): Qiming Wang, Dihua Sun, Zhen Liang, Junyi Wang, Xinxing Zhong, Yulin Lyu, Junning Cao, Lin Zheng, Yuanyuan Du, Zewei Miao, Shichun Lu, Cheng Li, Jun Xu, Yan Shi, Hongkui Deng
Software Mentions: 1
Published: almost 5 years ago

10.3389/fphys.2020.00577

N-Methyl-D-Aspartate Receptors in Hematopoietic Cells: What Have We Learned?
Cited by: 10
Author(s): Maggie L. Kalev‐Zylinska, James I. Hearn, Asya Makhro, Anna Bogdanova
Software Mentions: 1
Published: over 4 years ago

10.1038/srep09746

Convergence behaviour and Control in Non-Linear Biological Networks
Cited by: 18
Author(s): Stefan Karl, Thomas Dandekar
Software Mentions: 1
Published: over 9 years ago

10.1038/s41598-018-31688-9

SeesawPred: A Web Application for Predicting Cell-fate Determinants in Cell Differentiation
Cited by: 7
Author(s): András Hartmann, Satoshi Okawa, Gaia Zaffaroni, Antonio del Sol
Software Mentions: 1
Published: over 6 years ago

10.1371/journal.pone.0167081

Role of Hepatic-Specific Transcription Factors and Polycomb Repressive Complex 2 during Induction of Fibroblasts to Hepatic Fate
Cited by: 4
Author(s): Shima Rastegar-Pouyani, Niusha Khazaei, Ping Wee, Abdulshakour Mohammadnia, Moein Yaqubi
Software Mentions: 1
Published: about 8 years ago

10.1038/s41598-019-54961-x

AI-powered transmitted light microscopy for functional analysis of live cells
Cited by: 14
Author(s): Dong‐Young Kim, Yoo-Hong Min, Jung Min Oh, Yoon‐Kyoung Cho
Software Mentions: 1
Published: about 5 years ago

10.1074/mcp.M116.060145

A Cell-type-resolved Liver Proteome
Cited by: 73
Author(s): Chen Ding, Yanyan Li, Feifei Guo, Ying Jiang, Wantao Ying, Dong Liu, Dong Yang, Xia Xia, Wanlin Liu, Yan Zhao, Yangzhige He, Xianyu Li, Wei Sun, Qiongming Liu, Lei Song, Bei Zhen, Pumin Zhang, Xiaohong Qian, Jun Qin, Fuchu He
Software Mentions: 1
Published: about 8 years ago

Ecosyste.ms: Papers

Projects: pypi: CellNet

Papers Mentioning CellNet 33