Systems Biology

  1. The strand-biased transcription of SARS-CoV-2 and unbalanced inhibition by remdesivir

    1. Yan Zhao
    2. Jing Sun
    3. Yunfei Li
    4. Zhengxuan Li
    5. Yu Xie
    6. Ruoqing Feng
    7. Jincun Zhao
    8. Yuhui Hu

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  2. In-depth blood proteome profiling analysis revealed distinct functional characteristics of plasma proteins between severe and non-severe COVID-19 patients

    1. Joonho Park
    2. Hyeyoon Kim
    3. So Yeon Kim
    4. Yeonjae Kim
    5. Jee-Soo Lee
    6. Kisoon Dan
    7. Moon-Woo Seong
    8. Dohyun Han

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  3. Longitudinal proteomic analysis of severe COVID-19 reveals survival-associated signatures, tissue-specific cell death, and cell-cell interactions

    1. Michael R. Filbin
    2. Arnav Mehta
    3. Alexis M. Schneider
    4. Kyle R. Kays
    5. Jamey R. Guess
    6. Matteo Gentili
    7. Bánk G. Fenyves
    8. Nicole C. Charland
    9. Anna L.K. Gonye
    10. Irena Gushterova
    11. Hargun K. Khanna
    12. Thomas J. LaSalle
    13. Kendall M. Lavin-Parsons
    14. Brendan M. Lilley
    15. Carl L. Lodenstein
    16. Kasidet Manakongtreecheep
    17. Justin D. Margolin
    18. Brenna N. McKaig
    19. Maricarmen Rojas-Lopez
    20. Brian C. Russo
    21. Nihaarika Sharma
    22. Jessica Tantivit
    23. Molly F. Thomas
    24. Robert E. Gerszten
    25. Graham S. Heimberg
    26. Paul J. Hoover
    27. David J. Lieb
    28. Brian Lin
    29. Debby Ngo
    30. Karin Pelka
    31. Miguel Reyes
    32. Christopher S. Smillie
    33. Avinash Waghray
    34. Thomas E. Wood
    35. Amanda S. Zajac
    36. Lori L. Jennings
    37. Ida Grundberg
    38. Roby P. Bhattacharyya
    39. Blair Alden Parry
    40. Alexandra-Chloé Villani
    41. Moshe Sade-Feldman
    42. Nir Hacohen
    43. Marcia B. Goldberg

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  4. Probing the Dynamic Structure–Function and Structure-Free Energy Relationships of the Coronavirus Main Protease with Biodynamics Theory

    1. Hongbin Wan
    2. Vibhas Aravamuthan
    3. Robert A. Pearlstein

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  5. A Workflow of Integrated Resources to Catalyze Network Pharmacology Driven COVID-19 Research

    1. Gergely Zahoránszky-Kőhalmi
    2. Vishal B. Siramshetty
    3. Praveen Kumar
    4. Manideep Gurumurthy
    5. Busola Grillo
    6. Biju Mathew
    7. Dimitrios Metaxatos
    8. Mark Backus
    9. Tim Mierzwa
    10. Reid Simon
    11. Ivan Grishagin
    12. Laura Brovold
    13. Ewy A. Mathé
    14. Matthew D. Hall
    15. Samuel G. Michael
    16. Alexander G. Godfrey
    17. Jordi Mestres
    18. Lars J. Jensen
    19. Tudor I. Oprea

    Reviewed by ScreenIT

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  6. The Coronavirus Network Explorer: mining a large-scale knowledge graph for effects of SARS-CoV-2 on host cell function

    1. Andreas Krämer
    2. Jean-Noël Billaud
    3. Stuart Tugendreich
    4. Dan Shiffman
    5. Martin Jones
    6. Jeff Green

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  7. COVID-19 Disease Map, a computational knowledge repository of SARS-CoV-2 virus-host interaction mechanisms

    1. Marek Ostaszewski
    2. Anna Niarakis
    3. Alexander Mazein
    4. Inna Kuperstein
    5. Robert Phair
    6. Aurelio Orta-Resendiz
    7. Vidisha Singh
    8. Sara Sadat Aghamiri
    9. Marcio Luis Acencio
    10. Enrico Glaab
    11. Andreas Ruepp
    12. Gisela Fobo
    13. Corinna Montrone
    14. Barbara Brauner
    15. Goar Frishman
    16. Luis Cristóbal Monraz Gómez
    17. Julia Somers
    18. Matti Hoch
    19. Shailendra Kumar Gupta
    20. Julia Scheel
    21. Hanna Borlinghaus
    22. Tobias Czauderna
    23. Falk Schreiber
    24. Arnau Montagud
    25. Miguel Ponce de Leon
    26. Akira Funahashi
    27. Yusuke Hiki
    28. Noriko Hiroi
    29. Takahiro G. Yamada
    30. Andreas Dräger
    31. Alina Renz
    32. Muhammad Naveez
    33. Zsolt Bocskei
    34. Francesco Messina
    35. Daniela Börnigen
    36. Liam Fergusson
    37. Marta Conti
    38. Marius Rameil
    39. Vanessa Nakonecnij
    40. Jakob Vanhoefer
    41. Leonard Schmiester
    42. Muying Wang
    43. Emily E. Ackerman
    44. Jason Shoemaker
    45. Jeremy Zucker
    46. Kristie Oxford
    47. Jeremy Teuton
    48. Ebru Kocakaya
    49. Gökçe Yağmur Summak
    50. Kristina Hanspers
    51. Martina Kutmon
    52. Susan Coort
    53. Lars Eijssen
    54. Friederike Ehrhart
    55. D. A. B. Rex
    56. Denise Slenter
    57. Marvin Martens
    58. Nhung Pham
    59. Robin Haw
    60. Bijay Jassal
    61. Lisa Matthews
    62. Marija Orlic-Milacic
    63. Andrea Senff Ribeiro
    64. Karen Rothfels
    65. Veronica Shamovsky
    66. Ralf Stephan
    67. Cristoffer Sevilla
    68. Thawfeek Varusai
    69. Jean-Marie Ravel
    70. Rupsha Fraser
    71. Vera Ortseifen
    72. Silvia Marchesi
    73. Piotr Gawron
    74. Ewa Smula
    75. Laurent Heirendt
    76. Venkata Satagopam
    77. Guanming Wu
    78. Anders Riutta
    79. Martin Golebiewski
    80. Stuart Owen
    81. Carole Goble
    82. Xiaoming Hu
    83. Rupert W. Overall
    84. Dieter Maier
    85. Angela Bauch
    86. Benjamin M. Gyori
    87. John A. Bachman
    88. Carlos Vega
    89. Valentin Grouès
    90. Miguel Vazquez
    91. Pablo Porras
    92. Luana Licata
    93. Marta Iannuccelli
    94. Francesca Sacco
    95. Anastasia Nesterova
    96. Anton Yuryev
    97. Anita de Waard
    98. Denes Turei
    99. Augustin Luna
    100. Ozgun Babur
    101. Sylvain Soliman
    102. Alberto Valdeolivas
    103. Marina Esteban- Medina
    104. Maria Peña-Chilet
    105. Kinza Rian
    106. Tomáš Helikar
    107. Bhanwar Lal Puniya
    108. Dezso Modos
    109. Agatha Treveil
    110. Marton Olbei
    111. Bertrand De Meulder
    112. Aurélien Dugourd
    113. Aurélien Naldi
    114. Vincent Noë
    115. Laurence Calzone
    116. Chris Sander
    117. Emek Demir
    118. Tamas Korcsmaros
    119. Tom C. Freeman
    120. Franck Augé
    121. Jacques S. Beckmann
    122. Jan Hasenauer
    123. Olaf Wolkenhauer
    124. Egon L. Wilighagen
    125. Alexander R. Pico
    126. Chris T. Evelo
    127. Marc E. Gillespie
    128. Lincoln D. Stein
    129. Henning Hermjakob
    130. Peter D’Eustachio
    131. Julio Saez-Rodriguez
    132. Joaquin Dopazo
    133. Alfonso Valencia
    134. Hiroaki Kitano
    135. Emmanuel Barillot
    136. Charles Auffray
    137. Rudi Balling
    138. Reinhard Schneider
    139. the COVID-19 Disease Map Community

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  8. A 3D structural SARS-CoV-2–human interactome to explore genetic and drug perturbations

    1. Shayne D. Wierbowski
    2. Siqi Liang
    3. Yuan Liu
    4. You Chen
    5. Shagun Gupta
    6. Nicole M. Andre
    7. Steven M. Lipkin
    8. Gary R. Whittaker
    9. Haiyuan Yu

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  9. Genome Scale-Differential Flux Analysis reveals deregulation of lung cell metabolism on SARS-CoV-2 infection

    1. Piyush Nanda
    2. Amit Ghosh

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  10. Scalable workflow for characterization of cell-cell communication in COVID-19 patients

    1. Yingxin Lin
    2. Lipin Loo
    3. Andy Tran
    4. David M. Lin
    5. Cesar Moreno
    6. Daniel Hesselson
    7. G. Gregory Neely
    8. Jean Y. H. Yang

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