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Items: 1 to 50 of 68

1.

Subunit exchange enhances information retention by CaMKII in dendritic spines.

Singh D, Bhalla US.

Elife. 2018 Nov 12;7. pii: e41412. doi: 10.7554/eLife.41412.

2.

FindSim: A Framework for Integrating Neuronal Data and Signaling Models.

Viswan NA, HarshaRani GV, Stefan MI, Bhalla US.

Front Neuroinform. 2018 Jun 26;12:38. doi: 10.3389/fninf.2018.00038. eCollection 2018.

3.

Discovery biology of neuropsychiatric syndromes (DBNS): a center for integrating clinical medicine and basic science.

Viswanath B, Rao NP, Narayanaswamy JC, Sivakumar PT, Kandasamy A, Kesavan M, Mehta UM, Venkatasubramanian G, John JP, Mukherjee O, Purushottam M, Kannan R, Mehta B, Kandavel T, Binukumar B, Saini J, Jayarajan D, Shyamsundar A, Moirangthem S, Vijay Kumar KG, Thirthalli J, Chandra PS, Gangadhar BN, Murthy P, Panicker MM, Bhalla US, Chattarji S, Benegal V, Varghese M, Reddy JYC, Raghu P, Rao M, Jain S.

BMC Psychiatry. 2018 Apr 18;18(1):106. doi: 10.1186/s12888-018-1674-2.

4.

Dendrites, deep learning, and sequences in the hippocampus.

Bhalla US.

Hippocampus. 2019 Mar;29(3):239-251. doi: 10.1002/hipo.22806. Epub 2017 Oct 30.

PMID:
29024221
5.
6.

Multirate method for co-simulation of electrical-chemical systems in multiscale modeling.

Brocke E, Djurfeldt M, Bhalla US, Kotaleski JH, Hanke M.

J Comput Neurosci. 2017 Jun;42(3):245-256. doi: 10.1007/s10827-017-0639-7. Epub 2017 Apr 7.

7.

Efficient Integration of Coupled Electrical-Chemical Systems in Multiscale Neuronal Simulations.

Brocke E, Bhalla US, Djurfeldt M, Hellgren Kotaleski J, Hanke M.

Front Comput Neurosci. 2016 Sep 12;10:97. doi: 10.3389/fncom.2016.00097. eCollection 2016.

8.

Role of DARPP-32 and ARPP-21 in the Emergence of Temporal Constraints on Striatal Calcium and Dopamine Integration.

Nair AG, Bhalla US, Hellgren Kotaleski J.

PLoS Comput Biol. 2016 Sep 1;12(9):e1005080. doi: 10.1371/journal.pcbi.1005080. eCollection 2016 Sep.

9.

Minority odors get equal say.

Gupta P, Bhalla US.

Elife. 2016 Jun 23;5. pii: e18037. doi: 10.7554/eLife.18037.

10.

Spike Detection for Large Neural Populations Using High Density Multielectrode Arrays.

Muthmann JO, Amin H, Sernagor E, Maccione A, Panas D, Berdondini L, Bhalla US, Hennig MH.

Front Neuroinform. 2015 Dec 18;9:28. doi: 10.3389/fninf.2015.00028. eCollection 2015.

11.

Robust and Rapid Air-Borne Odor Tracking without Casting.

Bhattacharyya U, Bhalla US.

eNeuro. 2015 Dec 7;2(6). pii: ENEURO.0102-15.2015. doi: 10.1523/ENEURO.0102-15.2015. eCollection 2015 Nov-Dec.

12.

NSDF: Neuroscience Simulation Data Format.

Ray S, Chintaluri C, Bhalla US, Wójcik DK.

Neuroinformatics. 2016 Apr;14(2):147-67. doi: 10.1007/s12021-015-9282-5.

13.

Bulbar microcircuit model predicts connectivity and roles of interneurons in odor coding.

Gilra A, Bhalla US.

PLoS One. 2015 May 5;10(5):e0098045. doi: 10.1371/journal.pone.0098045. eCollection 2015.

14.

Olfactory bulb coding of odors, mixtures and sniffs is a linear sum of odor time profiles.

Gupta P, Albeanu DF, Bhalla US.

Nat Neurosci. 2015 Feb;18(2):272-81. doi: 10.1038/nn.3913. Epub 2015 Jan 12.

PMID:
25581362
15.

Transcription control pathways decode patterned synaptic inputs into diverse mRNA expression profiles.

Jain P, Bhalla US.

PLoS One. 2014 May 1;9(5):e95154. doi: 10.1371/journal.pone.0095154. eCollection 2014.

16.

Molecular computation in neurons: a modeling perspective.

Bhalla US.

Curr Opin Neurobiol. 2014 Apr;25:31-7. doi: 10.1016/j.conb.2013.11.006. Epub 2013 Dec 12. Review.

PMID:
24709598
17.

CA1 cell activity sequences emerge after reorganization of network correlation structure during associative learning.

Modi MN, Dhawale AK, Bhalla US.

Elife. 2014 Mar 25;3:e01982. doi: 10.7554/eLife.01982.

18.

Multiscale modeling and synaptic plasticity.

Bhalla US.

Prog Mol Biol Transl Sci. 2014;123:351-86. doi: 10.1016/B978-0-12-397897-4.00012-7. Review.

PMID:
24560151
19.

Laterality and symmetry in rat olfactory behavior and in physiology of olfactory input.

Parthasarathy K, Bhalla US.

J Neurosci. 2013 Mar 27;33(13):5750-60. doi: 10.1523/JNEUROSCI.1781-12.2013.

20.

Theta frequency background tunes transmission but not summation of spiking responses.

Parameshwaran D, Bhalla US.

PLoS One. 2013;8(1):e55607. doi: 10.1371/journal.pone.0055607. Epub 2013 Jan 31.

21.

Summation in the Hippocampal CA3-CA1 Network Remains Robustly Linear Following Inhibitory Modulation and Plasticity, but Undergoes Scaling and Offset Transformations.

Parameshwaran D, Bhalla US.

Front Comput Neurosci. 2012 Sep 25;6:71. doi: 10.3389/fncom.2012.00071. eCollection 2012.

22.

Rats track odour trails accurately using a multi-layered strategy with near-optimal sampling.

Khan AG, Sarangi M, Bhalla US.

Nat Commun. 2012 Feb 28;3:703. doi: 10.1038/ncomms1712.

PMID:
22426224
23.

Trafficking motifs as the basis for two-compartment signaling systems to form multiple stable states.

Bhalla US.

Biophys J. 2011 Jul 6;101(1):21-32. doi: 10.1016/j.bpj.2011.05.037.

24.

Multiscale interactions between chemical and electric signaling in LTP induction, LTP reversal and dendritic excitability.

Bhalla US.

Neural Netw. 2011 Nov;24(9):943-9. doi: 10.1016/j.neunet.2011.05.001. Epub 2011 May 10.

PMID:
21616637
25.

Minimum Information About a Simulation Experiment (MIASE).

Waltemath D, Adams R, Beard DA, Bergmann FT, Bhalla US, Britten R, Chelliah V, Cooling MT, Cooper J, Crampin EJ, Garny A, Hoops S, Hucka M, Hunter P, Klipp E, Laibe C, Miller AK, Moraru I, Nickerson D, Nielsen P, Nikolski M, Sahle S, Sauro HM, Schmidt H, Snoep JL, Tolle D, Wolkenhauer O, Le Novère N.

PLoS Comput Biol. 2011 Apr;7(4):e1001122. doi: 10.1371/journal.pcbi.1001122. Epub 2011 Apr 28. No abstract available.

26.

Non-redundant odor coding by sister mitral cells revealed by light addressable glomeruli in the mouse.

Dhawale AK, Hagiwara A, Bhalla US, Murthy VN, Albeanu DF.

Nat Neurosci. 2010 Nov;13(11):1404-12. doi: 10.1038/nn.2673. Epub 2010 Oct 17.

27.

Odor representations in the mammalian olfactory bulb.

Khan AG, Parthasarathy K, Bhalla US.

Wiley Interdiscip Rev Syst Biol Med. 2010 Sep-Oct;2(5):603-611. doi: 10.1002/wsbm.85. Review.

PMID:
20836051
28.

NeuroML: a language for describing data driven models of neurons and networks with a high degree of biological detail.

Gleeson P, Crook S, Cannon RC, Hines ML, Billings GO, Farinella M, Morse TM, Davison AP, Ray S, Bhalla US, Barnes SR, Dimitrova YD, Silver RA.

PLoS Comput Biol. 2010 Jun 17;6(6):e1000815. doi: 10.1371/journal.pcbi.1000815.

29.

Run-time interoperability between neuronal network simulators based on the MUSIC framework.

Djurfeldt M, Hjorth J, Eppler JM, Dudani N, Helias M, Potjans TC, Bhalla US, Diesmann M, Kotaleski JH, Ekeberg O.

Neuroinformatics. 2010 Mar;8(1):43-60. doi: 10.1007/s12021-010-9064-z.

30.

Signaling logic of activity-triggered dendritic protein synthesis: an mTOR gate but not a feedback switch.

Jain P, Bhalla US.

PLoS Comput Biol. 2009 Feb;5(2):e1000287. doi: 10.1371/journal.pcbi.1000287. Epub 2009 Feb 13.

31.

PyMOOSE: Interoperable Scripting in Python for MOOSE.

Ray S, Bhalla US.

Front Neuroinform. 2008 Dec 19;2:6. doi: 10.3389/neuro.11.006.2008. eCollection 2008.

32.

Memory switches in chemical reaction space.

Ramakrishnan N, Bhalla US.

PLoS Comput Biol. 2008 Jul 18;4(7):e1000122. doi: 10.1371/journal.pcbi.1000122.

33.

How to record a million synaptic weights in a hippocampal slice.

Bhalla US.

PLoS Comput Biol. 2008 Jun 20;4(6):e1000098. doi: 10.1371/journal.pcbi.1000098.

34.

Odor representations in the rat olfactory bulb change smoothly with morphing stimuli.

Khan AG, Thattai M, Bhalla US.

Neuron. 2008 Feb 28;57(4):571-85. doi: 10.1016/j.neuron.2008.01.008.

35.

The network and the synapse: 100 years after Cajal.

Dhawale A, Bhalla US.

HFSP J. 2008 Feb;2(1):12-6. doi: 10.2976/1.2835214. Epub 2008 Jan 30.

36.

Interoperability of neuroscience modeling software: current status and future directions.

Cannon RC, Gewaltig MO, Gleeson P, Bhalla US, Cornelis H, Hines ML, Howell FW, Muller E, Stiles JR, Wils S, De Schutter E.

Neuroinformatics. 2007 Summer;5(2):127-38. Review.

37.

A propagating ERKII switch forms zones of elevated dendritic activation correlated with plasticity.

Ajay SM, Bhalla US.

HFSP J. 2007 May;1(1):49-66. doi: 10.2976/1.2721383/10.2976/1. Epub 2007 Apr 18.

38.

Synaptic plasticity in vitro and in silico: insights into an intracellular signaling maze.

Ajay SM, Bhalla US.

Physiology (Bethesda). 2006 Aug;21:289-96. Review.

39.

Rats smell in stereo.

Rajan R, Clement JP, Bhalla US.

Science. 2006 Feb 3;311(5761):666-70.

40.

Minimum information requested in the annotation of biochemical models (MIRIAM).

Le Novère N, Finney A, Hucka M, Bhalla US, Campagne F, Collado-Vides J, Crampin EJ, Halstead M, Klipp E, Mendes P, Nielsen P, Sauro H, Shapiro B, Snoep JL, Spence HD, Wanner BL.

Nat Biotechnol. 2005 Dec;23(12):1509-15.

PMID:
16333295
41.

Molecular switches at the synapse emerge from receptor and kinase traffic.

Hayer A, Bhalla US.

PLoS Comput Biol. 2005 Jul;1(2):137-54. Epub 2005 Jul 29.

42.

Systems modeling: a pathway to drug discovery.

Rajasethupathy P, Vayttaden SJ, Bhalla US.

Curr Opin Chem Biol. 2005 Aug;9(4):400-6. Review.

PMID:
16006180
43.

Electronic data sources for kinetic models of cell signaling.

HarshaRani GV, Vayttaden SJ, Bhalla US.

J Biochem. 2005 Jun;137(6):653-7. Review.

PMID:
16002985
44.

A role for ERKII in synaptic pattern selectivity on the time-scale of minutes.

Ajay SM, Bhalla US.

Eur J Neurosci. 2004 Nov;20(10):2671-80.

PMID:
15548210
45.

A spectrum of models of signaling pathways.

Vayttaden SJ, Ajay SM, Bhalla US.

Chembiochem. 2004 Oct 4;5(10):1365-74. Review. No abstract available.

PMID:
15457536
48.

Models of cell signaling pathways.

Bhalla US.

Curr Opin Genet Dev. 2004 Aug;14(4):375-81. Review.

PMID:
15261653
49.

Developing complex signaling models using GENESIS/Kinetikit.

Vayttaden SJ, Bhalla US.

Sci STKE. 2004 Feb 3;2004(219):pl4.

PMID:
14872097
50.

Adaptive stochastic-deterministic chemical kinetic simulations.

Vasudeva K, Bhalla US.

Bioinformatics. 2004 Jan 1;20(1):78-84.

PMID:
14693812

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