-
1
-
-
85018308823
-
HPIDB 2.0: A curated database for host-pathogen interactions
-
Ammari MG, Gresham CR, McCarthy FM, Nanduri B. 2016. HPIDB 2.0: a curated database for host-pathogen interactions. Database (Oxford) 2016:baw103. https://doi.org/10.1093/database/baw103.
-
(2016)
Database (Oxford)
, vol.2016
, pp. baw103
-
-
Ammari, M.G.1
Gresham, C.R.2
McCarthy, F.M.3
Nanduri, B.4
-
2
-
-
34250675300
-
Epstein-Barr virus and virus human protein interaction maps
-
Calderwood MA, Venkatesan K, Xing L, Chase MR, Vazquez A, Holthaus AM, Ewence AE, Li N, Hirozane-Kishikawa T, Hill DE, Vidal M, Kieff E, Johannsen E. 2007. Epstein-Barr virus and virus human protein interaction maps. Proc Natl Acad Sci U S A 104:7606–7611. https://doi.org/10.1073/pnas.0702332104.
-
(2007)
Proc Natl Acad Sci U S A
, vol.104
, pp. 7606-7611
-
-
Calderwood, M.A.1
Venkatesan, K.2
Xing, L.3
Chase, M.R.4
Vazquez, A.5
Holthaus, A.M.6
Ewence, A.E.7
Li, N.8
Hirozane-Kishikawa, T.9
Hill, D.E.10
Vidal, M.11
Kieff, E.12
Johannsen, E.13
-
3
-
-
55549117151
-
Hepatitis C virus infection protein network
-
De Chassey B, Navratil V, Tafforeau L, Hiet MS, Aublin-Gex A, Agaugue S, Meiffren G, Pradezynski F, Faria BF, Chantier T, Le Breton M, Pellet J, Davoust N, Mangeot PE, Chaboud A, Penin F, Jacob Y, Vidalain PO, Vidal M, Andre P, Rabourdin-Combe C, Lotteau V. 2008. Hepatitis C virus infection protein network. Mol Syst Biol 4:230. https://doi.org/10.1038/msb.2008.66.
-
(2008)
Mol Syst Biol
, vol.4
, pp. 230
-
-
De Chassey, B.1
Navratil, V.2
Tafforeau, L.3
Hiet, M.S.4
Aublin-Gex, A.5
Agaugue, S.6
Meiffren, G.7
Pradezynski, F.8
Faria, B.F.9
Chantier, T.10
Le Breton, M.11
Pellet, J.12
Davoust, N.13
Mangeot, P.E.14
Chaboud, A.15
Penin, F.16
Jacob, Y.17
Vidalain, P.O.18
Vidal, M.19
Andre, P.20
Rabourdin-Combe, C.21
Lotteau, V.22
more..
-
4
-
-
85057310772
-
Critical assessment and performance improvement of plant-pathogen protein-protein interaction prediction methods
-
Yang S, Li H, He H, Zhou Y, Zhang Z. 2019. Critical assessment and performance improvement of plant-pathogen protein-protein interaction prediction methods. Brief Bioinform 20:274–287. https://doi.org/10 .1093/bib/bbx123.
-
(2019)
Brief Bioinform
, vol.20
, pp. 274-287
-
-
Yang, S.1
Li, H.2
He, H.3
Zhou, Y.4
Zhang, Z.5
-
5
-
-
85029099606
-
Local action with global impact: Highly similar infection patterns of human viruses and bac-teriophages
-
Mariano R, Khuri S, Uetz P, Wuchty S. 2016. Local action with global impact: highly similar infection patterns of human viruses and bac-teriophages. mSystems 1:e00030-15. https://doi.org/10.1128/mSystems.00030-15.
-
(2016)
mSystems
, vol.1
, pp. e00030-e00115
-
-
Mariano, R.1
Khuri, S.2
Uetz, P.3
Wuchty, S.4
-
6
-
-
84930715900
-
Structure, dynamics, assembly, and evolution of protein complexes
-
Marsh JA, Teichmann SA. 2015. Structure, dynamics, assembly, and evolution of protein complexes. Annu Rev Biochem 84:551–575. https://doi.org/10.1146/annurev-biochem-060614-034142.
-
(2015)
Annu Rev Biochem
, vol.84
, pp. 551-575
-
-
Marsh, J.A.1
Teichmann, S.A.2
-
7
-
-
85044976585
-
Computational prediction of protein complexes from protein interaction networks
-
Association for Computing Machinery, New York, NY
-
Srihari S, Yong CH, Wong L. 2017. Computational prediction of protein complexes from protein interaction networks. ACM Books 16. Association for Computing Machinery, New York, NY. https://doi.org/10.1145/3064650.
-
(2017)
ACM Books 16
-
-
Srihari, S.1
Yong, C.H.2
Wong, L.3
-
8
-
-
38549163153
-
CoruM: The comprehensive resource of mammalian protein complexes
-
Ruepp A, Brauner B, Dunger-Kaltenbach I, Frishman G, Montrone C, Stransky M, Waegele B, Schmidt T, Doudieu ON, Stumpflen V, Mewes HW. 2007. CORUM: the comprehensive resource of mammalian protein complexes. Nucleic Acids Res 36:D646–D650. https://doi.org/10.1093/nar/gkm936.
-
(2007)
Nucleic Acids Res
, vol.36
, pp. D646-D650
-
-
Ruepp, A.1
Brauner, B.2
Dunger-Kaltenbach, I.3
Frishman, G.4
Montrone, C.5
Stransky, M.6
Waegele, B.7
Schmidt, T.8
Doudieu, O.N.9
Stumpflen, V.10
Mewes, H.W.11
-
9
-
-
75549091794
-
CoruM: The comprehensive resource of mammalian protein complexes–2009
-
Ruepp A, Waegele B, Lechner M, Brauner B, Dunger-Kaltenbach I, Fobo G, Frishman G, Montrone C, Mewes HW. 2010. CORUM: the comprehensive resource of mammalian protein complexes–2009. Nucleic Acids Res 38:D497–D501. https://doi.org/10.1093/nar/gkp914.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. D497-D501
-
-
Ruepp, A.1
Waegele, B.2
Lechner, M.3
Brauner, B.4
Dunger-Kaltenbach, I.5
Fobo, G.6
Frishman, G.7
Montrone, C.8
Mewes, H.W.9
-
10
-
-
85021320754
-
Integration of over 9,000 mass spectrometry experiments builds a global map of human protein complexes
-
Drew K, Lee C, Huizar RL, Tu F, Borgeson B, McWhite CD, Ma Y, Wallingford JB, Marcotte EM. 2017. Integration of over 9,000 mass spectrometry experiments builds a global map of human protein complexes. Mol Syst Biol 13:932. https://doi.org/10.15252/msb.20167490.
-
(2017)
Mol Syst Biol
, vol.13
, pp. 932
-
-
Drew, K.1
Lee, C.2
Huizar, R.L.3
Tu, F.4
Borgeson, B.5
McWhite, C.D.6
Ma, Y.7
Wallingford, J.B.8
Marcotte, E.M.9
-
11
-
-
84942031770
-
Panorama of ancient metazoan macromolecular complexes
-
Wan C, Borgeson B, Phanse S, Tu F, Drew K, Clark G, Xiong X, Kagan O, Kwan J, Bezginov A, Chessman K, Pal S, Cromar G, Papoulas O, Ni Z, Boutz DR, Stoilova S, Havugimana PC, Guo X, Malty RH, Sarov M, Greenblatt J, Babu M, Derry WB, Tillier ER, Wallingford JB, Parkinson J, Marcotte EM, Emili A. 2015. Panorama of ancient metazoan macromolecular complexes. Nature 525:339–344. https://doi.org/10.1038/nature14877.
-
(2015)
Nature
, vol.525
, pp. 339-344
-
-
Wan, C.1
Borgeson, B.2
Phanse, S.3
Tu, F.4
Drew, K.5
Clark, G.6
Xiong, X.7
Kagan, O.8
Kwan, J.9
Bezginov, A.10
Chessman, K.11
Pal, S.12
Cromar, G.13
Papoulas, O.14
Ni, Z.15
Boutz, D.R.16
Stoilova, S.17
Havugimana, P.C.18
Guo, X.19
Malty, R.H.20
Sarov, M.21
Greenblatt, J.22
Babu, M.23
Derry, W.B.24
Tillier, E.R.25
Wallingford, J.B.26
Parkinson, J.27
Marcotte, E.M.28
Emili, A.29
more..
-
12
-
-
84937213168
-
The BioPlex network: A systematic exploration of the human interactome
-
Huttlin EL, Ting L, Bruckner RJ, Gebreab F, Gygi MP, Szpyt J, Tam S, Zarraga G, Colby G, Baltier K, Dong R, Guarani V, Vaites LP, Ordureau A, Rad R, Erickson BK, Wuhr M, Chick J, Zhai B, Kolippakkam D, Mintseris J, Obar RA, Harris T, Artavanis-Tsakonas S, Sowa ME, De Camilli P, Paulo JA, Harper JW, Gygi SP. 2015. The BioPlex network: a systematic exploration of the human interactome. Cell 162:425–440. https://doi.org/10.1016/j.cell.2015.06.043.
-
(2015)
Cell
, vol.162
, pp. 425-440
-
-
Huttlin, E.L.1
Ting, L.2
Bruckner, R.J.3
Gebreab, F.4
Gygi, M.P.5
Szpyt, J.6
Tam, S.7
Zarraga, G.8
Colby, G.9
Baltier, K.10
Dong, R.11
Guarani, V.12
Vaites, L.P.13
Ordureau, A.14
Rad, R.15
Erickson, B.K.16
Wuhr, M.17
Chick, J.18
Zhai, B.19
Kolippakkam, D.20
Mintseris, J.21
Obar, R.A.22
Harris, T.23
Artavanis-Tsakonas, S.24
Sowa, M.E.25
De Camilli, P.26
Paulo, J.A.27
Harper, J.W.28
Gygi, S.P.29
more..
-
13
-
-
84948067587
-
A human interactome in three quantitative dimensions organized by stoichiometries and abundances
-
Hein MY, Hubner NC, Poser I, Cox J, Nagaraj N, Toyoda Y, Gak IA, Weisswange I, Mansfeld J, Buchholz F, Hyman AA, Mann M. 2015. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. Cell 163:712–723. https://doi.org/10.1016/j.cell.2015.09.053.
-
(2015)
Cell
, vol.163
, pp. 712-723
-
-
Hein, M.Y.1
Hubner, N.C.2
Poser, I.3
Cox, J.4
Nagaraj, N.5
Toyoda, Y.6
Gak, I.A.7
Weisswange, I.8
Mansfeld, J.9
Buchholz, F.10
Hyman, A.A.11
Mann, M.12
-
14
-
-
81255160914
-
Viral subversion of the host protein synthesis machinery
-
Walsh D, Mohr I. 2011. Viral subversion of the host protein synthesis machinery. Nat Rev Microbiol 9:860–875. https://doi.org/10.1038/nrmicro2655.
-
(2011)
Nat Rev Microbiol
, vol.9
, pp. 860-875
-
-
Walsh, D.1
Mohr, I.2
-
15
-
-
85039946126
-
A global interactome map of the dengue virus NS1 identifies virus restriction and dependency host factors
-
Hafirassou ML, Meertens L, Umana-Diaz C, Labeau A, Dejarnac O, Bonnet-Madin L, Kummerer BM, Delaugerre C, Roingeard P, Vidalain PO, Amara A. 2017. A global interactome map of the dengue virus NS1 identifies virus restriction and dependency host factors. Cell Rep 21: 3900–3913. https://doi.org/10.1016/j.celrep.2017.11.094.
-
(2017)
Cell Rep
, vol.21
, pp. 3900-3913
-
-
Hafirassou, M.L.1
Meertens, L.2
Umana-Diaz, C.3
Labeau, A.4
Dejarnac, O.5
Bonnet-Madin, L.6
Kummerer, B.M.7
Delaugerre, C.8
Roingeard, P.9
Vidalain, P.O.10
Amara, A.11
-
16
-
-
84855998457
-
Global landscape of HIV-human protein complexes
-
Jager S, Cimermancic P, Gulbahce N, Johnson JR, McGovern KE, Clarke SC, Shales M, Mercenne G, Pache L, Li K, Hernandez H, Jang GM, Roth SL, Akiva E, Marlett J, Stephens M, D'Orso I, Fernandes J, Fahey M, Mahon C, O'Donoghue A.J, Todorovic A, Morris JH, Maltby DA, Alber T, Cagney G, Bushman FD, Young JA, Chanda SK, Sundquist WI, Kortemme T, Hernandez RD, Craik CS, Burlingame A, Sali A, Frankel AD, Krogan NJ. 2011. Global landscape of HIV-human protein complexes. Nature 481:365–370. https://doi.org/10.1038/nature10719.
-
(2011)
Nature
, vol.481
, pp. 365-370
-
-
Jager, S.1
Cimermancic, P.2
Gulbahce, N.3
Johnson, J.R.4
McGovern, K.E.5
Clarke, S.C.6
Shales, M.7
Mercenne, G.8
Pache, L.9
Li, K.10
Hernandez, H.11
Jang, G.M.12
Roth, S.L.13
Akiva, E.14
Marlett, J.15
Stephens, M.16
D'Orso, I.17
Fernandes, J.18
Fahey, M.19
Mahon, C.20
O'Donoghue, A.J.21
Todorovic, A.22
Morris, J.H.23
Maltby, D.A.24
Alber, T.25
Cagney, G.26
Bushman, F.D.27
Young, J.A.28
Chanda, S.K.29
Sundquist, W.I.30
Kortemme, T.31
Hernandez, R.D.32
Craik, C.S.33
Burlingame, A.34
Sali, A.35
Frankel, A.D.36
Krogan, N.J.37
more..
-
17
-
-
79251560002
-
1- To S-phase cell-cycle transition
-
1- to S-phase cell-cycle transition. Blood 117:1260–1269. https://doi.org/10.1182/blood-2010-06-289215.
-
(2011)
Blood
, vol.117
, pp. 1260-1269
-
-
Wang, J.1
Reuschel, E.L.2
Shackelford, J.M.3
Jeang, L.4
Shivers, D.K.5
Diehl, J.A.6
Yu, X.F.7
Finkel, T.H.8
-
18
-
-
77953242929
-
Chim3 confers survival advantage to CD4 T cells upon HIV-1 infection by preventing HIV-1 DNA integration and HIV-1-induced G2 cell-cycle delay
-
Porcellini S, Gubinelli F, Alberici L, Piovani BM, Rizzardi GP, Bovolenta C. 2010. Chim3 confers survival advantage to CD4 T cells upon HIV-1 infection by preventing HIV-1 DNA integration and HIV-1-induced G2 cell-cycle delay. Blood 115:4021–4029. https://doi.org/10.1182/blood-2009-09-243030.
-
(2010)
Blood
, vol.115
, pp. 4021-4029
-
-
Porcellini, S.1
Gubinelli, F.2
Alberici, L.3
Piovani, B.M.4
Rizzardi, G.P.5
Bovolenta, C.6
-
19
-
-
84962783040
-
Spatiotemporal variation of mammalian protein complex stoichiometries
-
Ori A, Iskar M, Buczak K, Kastritis P, Parca L, Andres-Pons A, Singer S, Bork P, Beck M. 2016. Spatiotemporal variation of mammalian protein complex stoichiometries. Genome Biol 17:47. https://doi.org/10.1186/s13059-016-0912-5.
-
(2016)
Genome Biol
, vol.17
, pp. 47
-
-
Ori, A.1
Iskar, M.2
Buczak, K.3
Kastritis, P.4
Parca, L.5
Andres-Pons, A.6
Singer, S.7
Bork, P.8
Beck, M.9
-
20
-
-
84878682420
-
The Genotype-Tissue Expression (GTEx) project
-
GTEx Consortium. 2013. The Genotype-Tissue Expression (GTEx) project. Nat Genet 45:580–585. https://doi.org/10.1038/ng.2653.
-
(2013)
Nat Genet
, vol.45
, pp. 580-585
-
-
-
21
-
-
84976532071
-
A high-resolution transcriptome map of cell cycle reveals novel connections between periodic genes and cancer
-
Dominguez D, Tsai YH, Gomez N, Jha DK, Davis I, Wang Z. 2016. A high-resolution transcriptome map of cell cycle reveals novel connections between periodic genes and cancer. Cell Res 26:946–962. https://doi.org/10.1038/cr.2016.84.
-
(2016)
Cell Res
, vol.26
, pp. 946-962
-
-
Dominguez, D.1
Tsai, Y.H.2
Gomez, N.3
Jha, D.K.4
Davis, I.5
Wang, Z.6
-
22
-
-
84920583713
-
Influenza virus-host interactome screen as a platform for antiviral drug development
-
Watanabe T, Kawakami E, Shoemaker JE, Lopes TJS, Matsuoka Y, Tomita Y, Kozuka-Hata H, Gorai T, Kuwahara T, Takeda E, Nagata A, Takano R, Kiso M, Yamashita M, Sakai-Tagawa Y, Katsura H, Nonaka N, Fujii H, Fujii K, Sugita Y, Noda T, Goto H, Fukuyama S, Watanabe S, Neumann G, Oyama M, Kitano H, Kawaoka Y. 2014. Influenza virus-host interactome screen as a platform for antiviral drug development. Cell Host Microbe 16:795–805. https://doi.org/10.1016/j.chom.2014.11.002.
-
(2014)
Cell Host Microbe
, vol.16
, pp. 795-805
-
-
Watanabe, T.1
Kawakami, E.2
Shoemaker, J.E.3
Lopes, T.J.S.4
Matsuoka, Y.5
Tomita, Y.6
Kozuka-Hata, H.7
Gorai, T.8
Kuwahara, T.9
Takeda, E.10
Nagata, A.11
Takano, R.12
Kiso, M.13
Yamashita, M.14
Sakai-Tagawa, Y.15
Katsura, H.16
Nonaka, N.17
Fujii, H.18
Fujii, K.19
Sugita, Y.20
Noda, T.21
Goto, H.22
Fukuyama, S.23
Watanabe, S.24
Neumann, G.25
Oyama, M.26
Kitano, H.27
Kawaoka, Y.28
more..
-
23
-
-
85015960685
-
An analysis of human microbe-disease associations
-
Ma W, Zhang L, Zeng P, Huang C, Li J, Geng B, Yang J, Kong W, Zhou X, Cui Q. 2017. An analysis of human microbe-disease associations. Brief Bioinform 18:85–97. https://doi.org/10.1093/bib/bbw005.
-
(2017)
Brief Bioinform
, vol.18
, pp. 85-97
-
-
Ma, W.1
Zhang, L.2
Zeng, P.3
Huang, C.4
Li, J.5
Geng, B.6
Yang, J.7
Kong, W.8
Zhou, X.9
Cui, Q.10
-
24
-
-
84895076942
-
Current progress in antiviral strategies
-
Lou Z, Sun Y, Rao Z. 2014. Current progress in antiviral strategies. Trends Pharmacol Sci 35:86–102. https://doi.org/10.1016/j.tips.2013.11.006.
-
(2014)
Trends Pharmacol Sci
, vol.35
, pp. 86-102
-
-
Lou, Z.1
Sun, Y.2
Rao, Z.3
-
25
-
-
84928017558
-
Virus-host interactomics: New insights and opportunities for antiviral drug discovery
-
De Chassey B, Meyniel-Schicklin L, Vonderscher J, André P, Lotteau V. 2014. Virus-host interactomics: new insights and opportunities for antiviral drug discovery. Genome Med 6:115. https://doi.org/10.1186/s13073-014-0115-1.
-
(2014)
Genome Med
, vol.6
, pp. 115
-
-
De Chassey, B.1
Meyniel-Schicklin, L.2
Vonderscher, J.3
André, P.4
Lotteau, V.5
-
26
-
-
85021649764
-
Host with the most: Targeting host cells instead of pathogens to fight infectious disease
-
Keener AB. 2017. Host with the most: targeting host cells instead of pathogens to fight infectious disease. Nat Med 23:528–531. https://doi.org/10.1038/nm0517-528.
-
(2017)
Nat Med
, vol.23
, pp. 528-531
-
-
Keener, A.B.1
-
27
-
-
33746622998
-
Protein-protein interactions more conserved within species than across species
-
Mika S, Rost B. 2006. Protein-protein interactions more conserved within species than across species. PLoS Comput Biol 2:e79. https://doi.org/10.1371/journal.pcbi.0020079.
-
(2006)
PLoS Comput Biol
, vol.2
-
-
Mika, S.1
Rost, B.2
-
28
-
-
84979993194
-
A review on host-pathogen interactions: Classification and prediction
-
Sen R, Nayak L, De RK. 2016. A review on host-pathogen interactions: classification and prediction. Eur J Clin Microbiol Infect Dis 35: 1581–1599. https://doi.org/10.1007/s10096-016-2716-7.
-
(2016)
Eur J Clin Microbiol Infect Dis
, vol.35
, pp. 1581-1599
-
-
Sen, R.1
Nayak, L.2
De, R.K.3
-
29
-
-
79955770162
-
Scaffold proteins: Hubs for controlling the flow of cellular information
-
Good MC, Zalatan JG, Lim WA. 2011. Scaffold proteins: hubs for controlling the flow of cellular information. Science 332:680–686. https://doi.org/10.1126/science.1198701.
-
(2011)
Science
, vol.332
, pp. 680-686
-
-
Good, M.C.1
Zalatan, J.G.2
Lim, W.A.3
-
30
-
-
0038692119
-
Human housekeeping genes are compact
-
Eisenberg E, Levanon EY. 2003. Human housekeeping genes are compact. Trends Genet 19:362–365. https://doi.org/10.1016/S0168-9525(03)00140-9.
-
(2003)
Trends Genet
, vol.19
, pp. 362-365
-
-
Eisenberg, E.1
Levanon, E.Y.2
-
31
-
-
84901228030
-
An integrated map of HIV-human protein complexes that facilitate viral infection
-
Emig-Agius D, Olivieri K, Pache L, Shih HL, Pustovalova O, Bessarabova M, Young JA, Chanda SK, Ideker T. 2014. An integrated map of HIV-human protein complexes that facilitate viral infection. PLoS One 9:e96687. https://doi.org/10.1371/journal.pone.0096687.
-
(2014)
PLoS One
, vol.9
-
-
Emig-Agius, D.1
Olivieri, K.2
Pache, L.3
Shih, H.L.4
Pustovalova, O.5
Bessarabova, M.6
Young, J.A.7
Chanda, S.K.8
Ideker, T.9
-
32
-
-
84903975402
-
Influenza viruses and mRNA splicing: Doing more with less
-
Dubois J, Terrier O, Rosa-Calatrava M. 2014. Influenza viruses and mRNA splicing: doing more with less. mBio 5:e00070-14. https://doi.org/10.1128/mBio.00070-14.
-
(2014)
mBio
, vol.5
, pp. e00070-e00114
-
-
Dubois, J.1
Terrier, O.2
Rosa-Calatrava, M.3
-
33
-
-
39349097864
-
Identification of host proteins required for HIV infection through a functional genomic screen
-
Brass AL, Dykxhoorn DM, Benita Y, Yan N, Engelman A, Xavier RJ, Lieberman J, Elledge SJ. 2008. Identification of host proteins required for HIV infection through a functional genomic screen. Science 319: 921–926. https://doi.org/10.1126/science.1152725.
-
(2008)
Science
, vol.319
, pp. 921-926
-
-
Brass, A.L.1
Dykxhoorn, D.M.2
Benita, Y.3
Yan, N.4
Engelman, A.5
Xavier, R.J.6
Lieberman, J.7
Elledge, S.J.8
-
34
-
-
58049202272
-
Innate immunity to virus infection
-
Takeuchi O, Akira S. 2009. Innate immunity to virus infection. Immunol Rev 227:75–86. https://doi.org/10.1111/j.1600-065X.2008.00737.x.
-
(2009)
Immunol Rev
, vol.227
, pp. 75-86
-
-
Takeuchi, O.1
Akira, S.2
-
35
-
-
84941625984
-
Gene activity in primary T cells infected with HIV89.6: Intron retention and induction of genomic repeats
-
Sherrill-Mix S, Ocwieja KE, Bushman FD. 2015. Gene activity in primary T cells infected with HIV89.6: intron retention and induction of genomic repeats. Retrovirology 12:79. https://doi.org/10.1186/s12977-015-0205-1.
-
(2015)
Retrovirology
, vol.12
, pp. 79
-
-
Sherrill-Mix, S.1
Ocwieja, K.E.2
Bushman, F.D.3
-
36
-
-
35648936553
-
De novo replication of the influenza virus RNA genome is regulated by DNA replicative helicase, MCM
-
Kawaguchi A, Nagata K. 2007. De novo replication of the influenza virus RNA genome is regulated by DNA replicative helicase, MCM. EMBO J 26:4566–4575. https://doi.org/10.1038/sj.emboj.7601881.
-
(2007)
EMBO J
, vol.26
, pp. 4566-4575
-
-
Kawaguchi, A.1
Nagata, K.2
-
37
-
-
13244284551
-
Dynamic complex formation during the yeast cell cycle
-
De Lichtenberg U, Jensen LJ, Brunak S, Bork P. 2005. Dynamic complex formation during the yeast cell cycle. Science 307:724–727. https://doi.org/10.1126/science.1105103.
-
(2005)
Science
, vol.307
, pp. 724-727
-
-
De Lichtenberg, U.1
Jensen, L.J.2
Brunak, S.3
Bork, P.4
-
38
-
-
84984914605
-
Subversion of cell cycle regulatory mechanisms by HIV
-
Rice AP, Kimata JT. 2015. Subversion of cell cycle regulatory mechanisms by HIV. Cell Host Microbe 17:736 –740. https://doi.org/10.1016/j.chom.2015.05.010.
-
(2015)
Cell Host Microbe
, vol.17
, pp. 736-740
-
-
Rice, A.P.1
Kimata, J.T.2
-
39
-
-
65549138868
-
How HIV changes its tropism: Evolution and adaptation?
-
Mosier DE. 2009. How HIV changes its tropism: evolution and adaptation? Curr Opin HIV AIDS 4:125–130. https://doi.org/10.1097/COH.0b013e3283223d61.
-
(2009)
Curr Opin HIV AIDS
, vol.4
, pp. 125-130
-
-
Mosier, D.E.1
-
40
-
-
20144380152
-
Human papillomavirus type 16 E1 E4-induced G2 arrest is associated with cytoplasmic retention of active Cdk1/cyclin B1 complexes
-
Davy CE, Jackson DJ, Raj K, Peh WL, Southern SA, Das P, Sorathia R, Laskey P, Middleton K, Nakahara T, Wang Q, Masterson PJ, Lambert PF, Cuthill S, Millar JB, Doorbar J. 2005. Human papillomavirus type 16 E1 E4-induced G2 arrest is associated with cytoplasmic retention of active Cdk1/cyclin B1 complexes. J Virol 79:3998–4011. https://doi.org/10.1128/JVI.79.7.3998-4011.2005.
-
(2005)
J Virol
, vol.79
, pp. 3998-4011
-
-
Davy, C.E.1
Jackson, D.J.2
Raj, K.3
Peh, W.L.4
Southern, S.A.5
Das, P.6
Sorathia, R.7
Laskey, P.8
Middleton, K.9
Nakahara, T.10
Wang, Q.11
Masterson, P.J.12
Lambert, P.F.13
Cuthill, S.14
Millar, J.B.15
Doorbar, J.16
-
41
-
-
84903554316
-
Different subunits belonging to the same protein complex often exhibit discordant expression levels and evolutionary properties
-
Matalon O, Horovitz A, Levy ED. 2014. Different subunits belonging to the same protein complex often exhibit discordant expression levels and evolutionary properties. Curr Opin Struct Biol 26:113–120. https://doi .org/10.1016/j.sbi.2014.06.001.
-
(2014)
Curr Opin Struct Biol
, vol.26
, pp. 113-120
-
-
Matalon, O.1
Horovitz, A.2
Levy, E.D.3
-
42
-
-
85051208319
-
A multiprotein supercomplex controlling oncogenic signalling in lymphoma
-
Phelan JD, Young RM, Webster DE, Roulland S, Wright GW, Kasbekar M, Shaffer A.L, III, Ceribelli M, Wang JQ, Schmitz R, Nakagawa M, Bachy E, Huang DW, Ji Y, Chen L, Yang Y, Zhao H, Yu X, Xu W, Palisoc MM, Valadez RR, Davies-Hill T, Wilson WH, Chan WC, Jaffe ES, Gascoyne RD, Campo E, Rosenwald A, Ott G, Delabie J, Rimsza LM, Rodriguez FJ, Estephan F, Holdhoff M, Kruhlak MJ, Hewitt SM, Thomas CJ, Pittaluga S, Oellerich T, Staudt LM. 2018. A multiprotein supercomplex controlling oncogenic signalling in lymphoma. Nature 560:387–391. https://doi.org/10.1038/s41586-018-0290-0.
-
(2018)
Nature
, vol.560
, pp. 387-391
-
-
Phelan, J.D.1
Young, R.M.2
Webster, D.E.3
Roulland, S.4
Wright, G.W.5
Kasbekar, M.6
Shaffer, A.L.7
Ceribelli, M.8
Wang, J.Q.9
Schmitz, R.10
Nakagawa, M.11
Bachy, E.12
Huang, D.W.13
Ji, Y.14
Chen, L.15
Yang, Y.16
Zhao, H.17
Yu, X.18
Xu, W.19
Palisoc, M.M.20
Valadez, R.R.21
Davies-Hill, T.22
Wilson, W.H.23
Chan, W.C.24
Jaffe, E.S.25
Gascoyne, R.D.26
Campo, E.27
Rosenwald, A.28
Ott, G.29
Delabie, J.30
Rimsza, L.M.31
Rodriguez, F.J.32
Estephan, F.33
Holdhoff, M.34
Kruhlak, M.J.35
Hewitt, S.M.36
Thomas, C.J.37
Pittaluga, S.38
Oellerich, T.39
Staudt, L.M.40
more..
-
43
-
-
85040924244
-
DrugBank 5.0: A major update to the DrugBank database for 2018
-
Wishart DS, Feunang YD, Guo AC, Lo EJ, Marcu A, Grant JR, Sajed T, Johnson D, Li C, Sayeeda Z, Assempour N, Iynkkaran I, Liu Y, Maciejewski A, Gale N, Wilson A, Chin L, Cummings R, Le D, Pon A, Knox C, Wilson M. 2018. DrugBank 5.0: a major update to the DrugBank database for 2018. Nucleic Acids Res 46:D1074 –D1082. https://doi.org/10.1093/nar/gkx1037.
-
(2018)
Nucleic Acids Res
, vol.46
, pp. D1074-D1082
-
-
Wishart, D.S.1
Feunang, Y.D.2
Guo, A.C.3
Lo, E.J.4
Marcu, A.5
Grant, J.R.6
Sajed, T.7
Johnson, D.8
Li, C.9
Sayeeda, Z.10
Assempour, N.11
Iynkkaran, I.12
Liu, Y.13
Maciejewski, A.14
Gale, N.15
Wilson, A.16
Chin, L.17
Cummings, R.18
Le, D.19
Pon, A.20
Knox, C.21
Wilson, M.22
more..
-
44
-
-
85040867496
-
Therapeutic target database update 2018: Enriched resource for facilitating bench-to-clinic research of targeted therapeutics
-
Li YH, Yu CY, Li XX, Zhang P, Tang J, Yang Q, Fu T, Zhang X, Cui X, Tu G, Zhang Y, Li S, Yang F, Sun Q, Qin C, Zeng X, Chen Z, Chen YZ, Zhu F. 2018. Therapeutic target database update 2018: enriched resource for facilitating bench-to-clinic research of targeted therapeutics. Nucleic Acids Res 46:D1121–D1127. https://doi.org/10.1093/nar/gkx1076.
-
(2018)
Nucleic Acids Res
, vol.46
, pp. D1121-D1127
-
-
Li, Y.H.1
Yu, C.Y.2
Li, X.X.3
Zhang, P.4
Tang, J.5
Yang, Q.6
Fu, T.7
Zhang, X.8
Cui, X.9
Tu, G.10
Zhang, Y.11
Li, S.12
Yang, F.13
Sun, Q.14
Qin, C.15
Zeng, X.16
Chen, Z.17
Chen, Y.Z.18
Zhu, F.19
-
45
-
-
84893952668
-
Targeting host factors to treat West Nile and dengue viral infections
-
Krishnan MN, Garcia-Blanco MA. 2014. Targeting host factors to treat West Nile and dengue viral infections. Viruses 6:683–708. https://doi.org/10.3390/v6020683.
-
(2014)
Viruses
, vol.6
, pp. 683-708
-
-
Krishnan, M.N.1
Garcia-Blanco, M.A.2
-
46
-
-
84941072747
-
EHFPI: A database and analysis resource of essential host factors for pathogenic infection
-
Liu Y, Xie D, Han L, Bai H, Li F, Wang S, Bo X. 2015. EHFPI: a database and analysis resource of essential host factors for pathogenic infection. Nucleic Acids Res 43:D946–D955. https://doi.org/10.1093/nar/gku1086.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. D946-D955
-
-
Liu, Y.1
Xie, D.2
Han, L.3
Bai, H.4
Li, F.5
Wang, S.6
Bo, X.7
-
47
-
-
85070670869
-
DgIDB 3.0: A redesign and expansion of the drug-gene interaction database
-
Cotto KC, Wagner AH, Feng YY, Kiwala S, Coffman AC, Spies G, Wollam A, Spies NC, Griffith OL, Griffith M. 2018. DGIdb 3.0: a redesign and expansion of the drug-gene interaction database. Nucleic Acids Res 46:D1068–D1073. https://doi.org/10.1093/nar/gkx1143.
-
(2018)
Nucleic Acids Res
, vol.46
, pp. D1068-D1073
-
-
Cotto, K.C.1
Wagner, A.H.2
Feng, Y.Y.3
Kiwala, S.4
Coffman, A.C.5
Spies, G.6
Wollam, A.7
Spies, N.C.8
Griffith, O.L.9
Griffith, M.10
-
48
-
-
84856633096
-
Can medical genetics and evolutionary biology inspire drug target identification?
-
Wang ZY, Fu LY, Zhang HY. 2012. Can medical genetics and evolutionary biology inspire drug target identification? Trends Mol Med 18:69 –71. https://doi.org/10.1016/j.molmed.2011.11.004.
-
(2012)
Trends Mol Med
, vol.18
, pp. 69-71
-
-
Wang, Z.Y.1
Fu, L.Y.2
Zhang, H.Y.3
-
49
-
-
84989355048
-
Systems biology-based investigation of cellular antiviral drug targets identified by gene-trap insertional mutagenesis
-
Cheng F, Murray JL, Zhao J, Sheng J, Zhao Z, Rubin DH. 2016. Systems biology-based investigation of cellular antiviral drug targets identified by gene-trap insertional mutagenesis. PLoS Comput Biol 12:e1005074. https://doi.org/10.1371/journal.pcbi.1005074.
-
(2016)
PLoS Comput Biol
, vol.12
-
-
Cheng, F.1
Murray, J.L.2
Zhao, J.3
Sheng, J.4
Zhao, Z.5
Rubin, D.H.6
-
50
-
-
85047116286
-
Interrogation of mammalian protein complex structure, function, and membership using genome-scale fitness screens
-
Pan J, Meyers RM, Michel BC, Mashtalir N, Sizemore AE, Wells JN, Cassel SH, Vazquez F, Weir BA, Hahn WC, Marsh JA, Tsherniak A, Kadoch C. 2018. Interrogation of mammalian protein complex structure, function, and membership using genome-scale fitness screens. Cell Syst 6:555–568. https://doi.org/10.1016/j.cels.2018.04.011.
-
(2018)
Cell Syst
, vol.6
, pp. 555-568
-
-
Pan, J.1
Meyers, R.M.2
Michel, B.C.3
Mashtalir, N.4
Sizemore, A.E.5
Wells, J.N.6
Cassel, S.H.7
Vazquez, F.8
Weir, B.A.9
Hahn, W.C.10
Marsh, J.A.11
Tsherniak, A.12
Kadoch, C.13
-
51
-
-
85016136235
-
The BioGRID interaction database: 2017 update
-
Chatr-Aryamontri A, Oughtred R, Boucher L, Rust J, Chang C, Kolas NK, O'Donnell L, Oster S, Theesfeld C, Sellam A, Stark C, Breitkreutz BJ, Dolinski K, Tyers M. 2017. The BioGRID interaction database: 2017 update. Nucleic Acids Res 45:D369–D379. https://doi.org/10.1093/nar/gkw1102.
-
(2017)
Nucleic Acids Res
, vol.45
, pp. D369-D379
-
-
Chatr-Aryamontri, A.1
Oughtred, R.2
Boucher, L.3
Rust, J.4
Chang, C.5
Kolas, N.K.6
O'Donnell, L.7
Oster, S.8
Theesfeld, C.9
Sellam, A.10
Stark, C.11
Breitkreutz, B.J.12
Dolinski, K.13
Tyers, M.14
-
52
-
-
84859204939
-
The IntAct molecular interaction database in 2012
-
Kerrien S, Aranda B, Breuza L, Bridge A, Broackes-Carter F, Chen C, Duesbury M, Dumousseau M, Feuermann M, Hinz U, Jandrasits C, Jimenez RC, Khadake J, Mahadevan U, Masson P, Pedruzzi I, Pfeiffenberger E, Porras P, Raghunath A, Roechert B, Orchard S, Hermjakob H. 2012. The IntAct molecular interaction database in 2012. Nucleic Acids Res 40: D841–D846. https://doi.org/10.1093/nar/gkr1088.
-
(2012)
Nucleic Acids Res
, vol.40
, pp. D841-D846
-
-
Kerrien, S.1
Aranda, B.2
Breuza, L.3
Bridge, A.4
Broackes-Carter, F.5
Chen, C.6
Duesbury, M.7
Dumousseau, M.8
Feuermann, M.9
Hinz, U.10
Jandrasits, C.11
Jimenez, R.C.12
Khadake, J.13
Mahadevan, U.14
Masson, P.15
Pedruzzi, I.16
Pfeiffenberger, E.17
Porras, P.18
Raghunath, A.19
Roechert, B.20
Orchard, S.21
Hermjakob, H.22
more..
-
53
-
-
0347755535
-
The database of interacting proteins: 2004 update
-
Salwinski L, Miller CS, Smith AJ, Pettit FK, Bowie JU, Eisenberg D. 2004. The database of interacting proteins: 2004 update. Nucleic Acids Res 32:D449–D451. https://doi.org/10.1093/nar/gkh086.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. D449-D451
-
-
Salwinski, L.1
Miller, C.S.2
Smith, A.J.3
Pettit, F.K.4
Bowie, J.U.5
Eisenberg, D.6
-
54
-
-
84901599553
-
A draft map of the human proteome
-
Kim M-S, Pinto SM, Getnet D, Nirujogi RS, Manda SS, Chaerkady R, Madugundu AK, Kelkar DS, Isserlin R, Jain S, Thomas JK, Muthusamy B, Leal-Rojas P, Kumar P, Sahasrabuddhe NA, Balakrishnan L, Advani J, George B, Renuse S, Selvan LDN, Patil AH, Nanjappa V, Radhakrishnan A, Prasad S, Subbannayya T, Raju R, Kumar M, Sreenivasamurthy SK, Ma-rimuthu A, Sathe GJ, Chavan S, Datta KK, Subbannayya Y, Sahu A, Yelamanchi SD, Jayaram S, Rajagopalan P, Sharma J, Murthy KR, Syed N, Goel R, Khan AA, Ahmad S, Dey G, Mudgal K, Chatterjee A, Huang T-C, Zhong J, Wu X, Shaw PG, Freed D, et al. 2014. A draft map of the human proteome. Nature 509:575–581. https://doi.org/10.1038/nature13302.
-
(2014)
Nature
, vol.509
, pp. 575-581
-
-
Kim, M.-S.1
Pinto, S.M.2
Getnet, D.3
Nirujogi, R.S.4
Manda, S.S.5
Chaerkady, R.6
Madugundu, A.K.7
Kelkar, D.S.8
Isserlin, R.9
Jain, S.10
Thomas, J.K.11
Muthusamy, B.12
Leal-Rojas, P.13
Kumar, P.14
Sahasrabuddhe, N.A.15
Balakrishnan, L.16
Advani, J.17
George, B.18
Renuse, S.19
Selvan, L.D.N.20
Patil, A.H.21
Nanjappa, V.22
Radhakrishnan, A.23
Prasad, S.24
Subbannayya, T.25
Raju, R.26
Kumar, M.27
Sreenivasamurthy, S.K.28
Marimuthu, A.29
Sathe, G.J.30
Chavan, S.31
Datta, K.K.32
Subbannayya, Y.33
Sahu, A.34
Yelamanchi, S.D.35
Jayaram, S.36
Rajagopalan, P.37
Sharma, J.38
Murthy, K.R.39
Syed, N.40
Goel, R.41
Khan, A.A.42
Ahmad, S.43
Dey, G.44
Mudgal, K.45
Chatterjee, A.46
Huang, T.-C.47
Zhong, J.48
Wu, X.49
Shaw, P.G.50
Freed, D.51
more..
-
55
-
-
84947471998
-
Gene essentiality and synthetic lethality in haploid human cells
-
Blomen VA, Majek P, Jae LT, Bigenzahn JW, Nieuwenhuis J, Staring J, Sacco R, van Diemen FR, Olk N, Stukalov A, Marceau C, Janssen H, Carette JE, Bennett KL, Colinge J, Superti-Furga G, Brummelkamp TR. 2015. Gene essentiality and synthetic lethality in haploid human cells. Science 350:1092–1096. https://doi.org/10.1126/science.aac7557.
-
(2015)
Science
, vol.350
, pp. 1092-1096
-
-
Blomen, V.A.1
Majek, P.2
Jae, L.T.3
Bigenzahn, J.W.4
Nieuwenhuis, J.5
Staring, J.6
Sacco, R.7
Van Diemen, F.R.8
Olk, N.9
Stukalov, A.10
Marceau, C.11
Janssen, H.12
Carette, J.E.13
Bennett, K.L.14
Colinge, J.15
Superti-Furga, G.16
Brummelkamp, T.R.17
-
56
-
-
85030314088
-
SCAPD: A database for human scaffold proteins
-
Han X, Wang J, Wang J, Liu S, Hu J, Zhu H, Qian J. 2017. ScaPD: a database for human scaffold proteins. BMC Bioinformatics 18:386. https://doi.org/10.1186/s12859-017-1806-6.
-
(2017)
BMC Bioinformatics
, vol.18
, pp. 386
-
-
Han, X.1
Wang, J.2
Wang, J.3
Liu, S.4
Hu, J.5
Zhu, H.6
Qian, J.7
-
57
-
-
52949130695
-
Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication
-
Konig R, Zhou Y, Elleder D, Diamond TL, Bonamy GM, Irelan JT, Chiang CY, Tu BP, De Jesus PD, Lilley CE, Seidel S, Opaluch AM, Caldwell JS, Weitzman MD, Kuhen KL, Bandyopadhyay S, Ideker T, Orth AP, Miraglia LJ, Bushman FD, Young JA, Chanda SK. 2008. Global analysis of host-pathogen interactions that regulate early-stage HIV-1 replication. Cell 135:49–60. https://doi.org/10.1016/j.cell.2008.07.032.
-
(2008)
Cell
, vol.135
, pp. 49-60
-
-
Konig, R.1
Zhou, Y.2
Elleder, D.3
Diamond, T.L.4
Bonamy, G.M.5
Irelan, J.T.6
Chiang, C.Y.7
Tu, B.P.8
De Jesus, P.D.9
Lilley, C.E.10
Seidel, S.11
Opaluch, A.M.12
Caldwell, J.S.13
Weitzman, M.D.14
Kuhen, K.L.15
Bandyopadhyay, S.16
Ideker, T.17
Orth, A.P.18
Miraglia, L.J.19
Bushman, F.D.20
Young, J.A.21
Chanda, S.K.22
more..
-
58
-
-
55249088255
-
Genome-scale RNAi screen for host factors required for HIV replication
-
Zhou H, Xu M, Huang Q, Gates AT, Zhang XD, Castle JC, Stec E, Ferrer M, Strulovici B, Hazuda DJ, Espeseth AS. 2008. Genome-scale RNAi screen for host factors required for HIV replication. Cell Host Microbe 4:495–504. https://doi.org/10.1016/j.chom.2008.10.004.
-
(2008)
Cell Host Microbe
, vol.4
, pp. 495-504
-
-
Zhou, H.1
Xu, M.2
Huang, Q.3
Gates, A.T.4
Zhang, X.D.5
Castle, J.C.6
Stec, E.7
Ferrer, M.8
Strulovici, B.9
Hazuda, D.J.10
Espeseth, A.S.11
-
59
-
-
84876581893
-
InnateDB: Systems biology of innate immunity and beyond–recent updates and continuing curation
-
Breuer K, Foroushani AK, Laird MR, Chen C, Sribnaia A, Lo R, Winsor GL, Hancock RE, Brinkman FS, Lynn DJ. 2013. InnateDB: systems biology of innate immunity and beyond–recent updates and continuing curation. Nucleic Acids Res 41:D1228–D1233. https://doi.org/10.1093/nar/gks1147.
-
(2013)
Nucleic Acids Res
, vol.41
, pp. D1228-D1233
-
-
Breuer, K.1
Foroushani, A.K.2
Laird, M.R.3
Chen, C.4
Sribnaia, A.5
Lo, R.6
Winsor, G.L.7
Hancock, R.E.8
Brinkman, F.S.9
Lynn, D.J.10
-
60
-
-
85021717489
-
G:Profiler—a web server for functional interpretation of gene lists (2016 update)
-
Reimand J, Arak T, Adler P, Kolberg L, Reisberg S, Peterson H, Vilo J. 2016. g:Profiler—a web server for functional interpretation of gene lists (2016 update). Nucleic Acids Res 44:W83–W89. https://doi.org/10.1093/nar/gkw199.
-
(2016)
Nucleic Acids Res
, vol.44
, pp. W83-W89
-
-
Reimand, J.1
Arak, T.2
Adler, P.3
Kolberg, L.4
Reisberg, S.5
Peterson, H.6
Vilo, J.7
-
61
-
-
84875142412
-
Protein complex-based analysis framework for high-throughput data sets
-
Vinayagam A, Hu Y, Kulkarni M, Roesel C, Sopko R, Mohr SE, Perrimon N. 2013. Protein complex-based analysis framework for high-throughput data sets. Sci Signal 6:rs5. https://doi.org/10.1126/scisignal.2003629.
-
(2013)
Sci Signal
, vol.6
, pp. rs5
-
-
Vinayagam, A.1
Hu, Y.2
Kulkarni, M.3
Roesel, C.4
Sopko, R.5
Mohr, S.E.6
Perrimon, N.7
-
62
-
-
84941080809
-
CycleBase 3.0: A multi-organism database on cell-cycle regulation and phenotypes
-
Santos A, Wernersson R, Jensen LJ. 2015. Cyclebase 3.0: a multi-organism database on cell-cycle regulation and phenotypes. Nucleic Acids Res 43:D1140 –D1144. https://doi.org/10.1093/nar/gku1092.
-
(2015)
Nucleic Acids Res
, vol.43
, pp. D1140-D1144
-
-
Santos, A.1
Wernersson, R.2
Jensen, L.J.3
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