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Integrative analysis based on survival associated co-expression gene modules for predicting Neuroblastoma patients' survival time.

Han Y, Ye X, Cheng J, Zhang S, Feng W, Han Z, Zhang J, Huang K.

Biol Direct. 2019 Feb 13;14(1):4. doi: 10.1186/s13062-018-0229-2.


From tumors to species: a SCANDAL hypothesis.

Panchin AY, Aleoshin VV, Panchin YV.

Biol Direct. 2019 Jan 23;14(1):3. doi: 10.1186/s13062-019-0233-1.


Interface residues of transient protein-protein complexes have extensive intra-protein interactions apart from inter-protein interactions.

Jayashree S, Murugavel P, Sowdhamini R, Srinivasan N.

Biol Direct. 2019 Jan 15;14(1):1. doi: 10.1186/s13062-019-0232-2.


Response to Martin and colleagues: mitochondria do not boost the bioenergetic capacity of eukaryotic cells.

Lynch M, Marinov GK.

Biol Direct. 2018 Nov 29;13(1):26. doi: 10.1186/s13062-018-0228-3.


Sense-antisense gene overlap is probably a cause for retaining the few introns in Giardia genome and the implications.

Xue M, Chen B, Ye Q, Shao J, Lyu Z, Wen J.

Biol Direct. 2018 Oct 17;13(1):23. doi: 10.1186/s13062-018-0226-5.


Assessment of urban microbiome assemblies with the help of targeted in silico gold standards.

Gerner SM, Rattei T, Graf AB.

Biol Direct. 2018 Oct 12;13(1):22. doi: 10.1186/s13062-018-0225-6.


Darwinian selection of host and bacteria supports emergence of Lamarckian-like adaptation of the system as a whole.

Osmanovic D, Kessler DA, Rabin Y, Soen Y.

Biol Direct. 2018 Oct 26;13(1):24. doi: 10.1186/s13062-018-0224-7.


Molecular mechanisms of the juvenile form of Batten disease: important role of MAPK signaling pathways (ERK1/ERK2, JNK and p38) in pathogenesis of the malady.

Shematorova EK, Shpakovski DG, Chernysheva AD, Shpakovski GV.

Biol Direct. 2018 Sep 25;13(1):19. doi: 10.1186/s13062-018-0212-y.


Reconstruction of endosomal organization and function by a combination of ODE and agent-based modeling strategies.

Mayorga LS, Cebrian I, Verma M, Hoops S, Bassaganya-Riera J.

Biol Direct. 2018 Nov 23;13(1):25. doi: 10.1186/s13062-018-0227-4.


Predicting clinical outcomes in neuroblastoma with genomic data integration.

Baali I, Acar DAE, Aderinwale TW, HafezQorani S, Kazan H.

Biol Direct. 2018 Sep 27;13(1):20. doi: 10.1186/s13062-018-0223-8.


Stable coevolutionary regimes for genetic parasites and their hosts: you must differ to coevolve.

Berezovskaya F, Karev GP, Katsnelson MI, Wolf YI, Koonin EV.

Biol Direct. 2018 Dec 14;13(1):27. doi: 10.1186/s13062-018-0230-9.


Is pre-Darwinian evolution plausible?

Tessera M.

Biol Direct. 2018 Sep 21;13(1):18. doi: 10.1186/s13062-018-0216-7. Review.


Integration of multiple types of genetic markers for neuroblastoma may contribute to improved prediction of the overall survival.

Polewko-Klim A, Lesiński W, Mnich K, Piliszek R, Rudnicki WR.

Biol Direct. 2018 Sep 20;13(1):17. doi: 10.1186/s13062-018-0222-9.


MetaBinG2: a fast and accurate metagenomic sequence classification system for samples with many unknown organisms.

Qiao Y, Jia B, Hu Z, Sun C, Xiang Y, Wei C.

Biol Direct. 2018 Aug 22;13(1):15. doi: 10.1186/s13062-018-0220-y.


Models of cell signaling uncover molecular mechanisms of high-risk neuroblastoma and predict disease outcome.

Hidalgo MR, Amadoz A, Çubuk C, Carbonell-Caballero J, Dopazo J.

Biol Direct. 2018 Aug 22;13(1):16. doi: 10.1186/s13062-018-0219-4.


Accumulation of potential driver genes with genomic alterations predicts survival of high-risk neuroblastoma patients.

Suo C, Deng W, Vu TN, Li M, Shi L, Pawitan Y.

Biol Direct. 2018 Jul 16;13(1):14. doi: 10.1186/s13062-018-0218-5.


Modeling protein folding in vivo.

Sorokina I, Mushegian A.

Biol Direct. 2018 Jul 6;13(1):13. doi: 10.1186/s13062-018-0217-6.


Predicting clinical outcome of neuroblastoma patients using an integrative network-based approach.

Tranchevent LC, Nazarov PV, Kaoma T, Schmartz GP, Muller A, Kim SY, Rajapakse JC, Azuaje F.

Biol Direct. 2018 Jun 7;13(1):12. doi: 10.1186/s13062-018-0214-9.


Predicting survival times for neuroblastoma patients using RNA-seq expression profiles.

Grimes T, Walker AR, Datta S, Datta S.

Biol Direct. 2018 May 30;13(1):11. doi: 10.1186/s13062-018-0213-x.

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