Over the next few months several post-bacs and I will be reading through much of the foundational work in functional connectivity MRI. We'll move roughly chronologically, reading 3-4 papers a week, taking about an hour to discuss them. I'll be rereading these papers and some others. You're welcome to read those other papers as well though we won't focus on them in discussions. As you can see, the papers will be blends of cognitive neuroscience, resting state studies, and denoising/processing studies.

* optional/additional reading

Week 0: some basics of fMRI neuroimaging (.pdfs)
  Savoy 2012 Neuroimage - on the things people need to know about fMRI
  Huettel 2012 Neuroimage - on modeling events
  Petersen 2012 Neuroimage - on block and event-related designs
  Cox 2012 Neuroimage - on AFNI
  Fischl 2012 Neuroimage - on FreeSurfer
  Van Essen 2012 Neuroimage - on Caret/Workbench
  Jenkinsen 2012 Neuroimage - on FSL

Week 1: the first reports (.pdfs)
  Biswal 1995 MRM - first report on spatial patterns in low-frequency BOLD signals
  Biswal 1996 MRM - one of the first reports examining role of physiological artifact in functional connectivity
  Lowe 1998 Neuroimage - the first replication of Biswal's findings
  * Biswal 1997 NMR Biomed
  * Biswal 1997 JCBFM
  * Prohovnik 1980 Neuropsychologia
  * Golanov 1994 AJP

Week 2: the first follow-ups (.pdfs)
  Xiong 1999 HBM
  Stein 2000 AJNR
  Cordes 2000 AJNR
  Hampson 2002 HBM
  * Zarahn 1997 Neuroimage
  * Aguirre 1997 Neuroimage
  * Obrig 2000 Neuroimage

Week 3: default mode network (.pdfs)
  Raichle 2001 PNAS
  Greicius 2003 PNAS
  Buckner 2012 Neuroimage
  * Andreasson 1995 AJP
  * Shulman 1997b JCN
  * Mazoyer 2001 BRB

Week 4: task control network(s) (.pdfs)
  Posner & Petersen 1990 ARN
  Dosenbach 2006 Neuron
  Dosenbach 2007 PNAS
  Seeley 2007 PNAS
  * Braver & Barch 2006 TICS
  * Shulman 1997a JCN
  
Week 5: attention networks a la Corbetta (.pdfs)
  Corbetta 1995 Science
  Corbetta 1998 Neuron
  Corbetta & Shulman 2002 NRN
  Fox 2006 PNAS
  * Corbetta 1993 J Neurosci
  * Corbetta 2000 Nat Neuro
  
Week 6: anticorrelations with default signals (.pdfs)
  Fransson 2005 HBM
  Fox 2005 PNAS
  Murphy 2009 Neuroimage
  Fox 2009 J Neurophys
  * Weissenbacher 2009 Neuroimage

Week 7: influence of pCO2 on fMRI signal (.pdfs)
  Glover 2000 NI
  Wise 2004 Neuroimage
  Birn 2006 Neuroimage
  Birn 2008 Neuroimage
  * Rostrup 1999 Neuroimage
  * Li 1999 Neuroimage

Week 8:  more denoising strategies (.pdfs)
  Behzadi 2007 Neuroimage
  Chang 2009 Neuroimage
  Chang 2009b Neuroimage
  Jo 2010 Neuroimage
  * Shmueli 2007 Neuroimage

Week 9: quantifying the global fMRI signal (.pdfs)
  Scholvinck 2010 PNAS
  Wong 2012 Neuroimage
  Wong 2013 Neuroimage
  Keller 2013 J Neurosci
  * Carbonell 2011 Neuroimage

Week 10: using functional connectivity MRI to define brain parcels (.pdfs)
  Cohen 2006 Neuroimage
  Nelson 2010 Neuron
  Gordon 2014 Cereb Cortex
  Laumann 2015 Neuron
  * Wig 2014 Neuroimage
  * Buckner 2014 Neuroimage

Week 11: the human connectome (.pdfs)
  Sporns 2005 PLoS Comp Biol
  Newman 2008 Physics Today
  Newman & Girvan 2003 Phys Rev E
  Newman 2003 SIAM Rev

Week 12: some influential network papers (.pdfs)
  Watts & Strogatz 1998 Nature
  Barabasi 1999 Science
  Albert 2000 Nature
  Jeong 2000 Nature
  * Barabasi 2003 Sci Amer

Week 13: clustering methods (.pdfs)
  Newman 2006 PNAS
  Rosvall & Bergstrom 2008 PNAS
  Fortunato 2007 PNAS
  * Lancichinetti & Fortunato 2009 PRE

Week 14: some early graph theory applications to fcMRI (.pdfs)
  Salvador 2005 Cereb Cortex
  Eguiluz 2005 PRL
  Achard 2006 J Neurosci
  Achard 2007 PLoS Comp Biol
  * Latora & Marchiori 2001 PRL
  * Bullmore & Sporns 2009 NRN

Week 15: development ca 2009 (.pdfs)
  Fair 2008 PNAS
  Fair 2009 PLoS Comp Biol
  Kelly 2009 Cereb Cortex
  Supekar 2009 PLoS Biol
  * Power 2010 Neuron

Week 16: early graphical clustering (.pdfs)
  Ferrarini 2008 HBM
  Meunier 2009 Front Neuroinf
  Meunier 2009 Neuroimage
  He 2009 PLoS ONE

Week 17: spatial ICA (.pdfs)
  Kiviniemi 2003 Neuroimage
  Beckmann 2005 Phil Trans RSB
  Damoiseaux 2006 PNAS
  Smith 2009 PNAS
  * McKeown 1998 HBM
  * McKeown & Sejnowski 1998 HBM
  * Beckmann 2012 Neuroimage

Week 18: system-level descriptions (.pdfs)
  Power 2011 Neuron
  Yeo 2011 J Neurophysiol
  Buckner 2011 J Neurophysiol
  * Choi 2012 J Neurophysiol

Week 19: first reports on motion artifact (.pdfs)
  Van Dijk 2012 Neuroimage
  Power 2012 Neuroimage
  Satterthwaite 2012 Neuroimage 

Week 20: first follow-ups on motion artifact (.pdfs)
  Carp 2012 Neuroimage
  Power 2013 Neuroimage
  Satterthwaite 2013 Neuroimage
  Yan 2013 Neuroimage

Week 21: Multi-echo techniques (.pdfs)
  Bright 2013 Neuroimage
  Kundu 2012 Neuroimage
  Kundu 2013 PNAS
  * Posse 2012 Neuroimage

Week 22: more follow-ups on motion (.pdfs)
  Jo 2013 J Applied Math
  Muschelli 2013 Neuroimage
  Hallquist 2013 Neuroimage

Week 23: more follow-ups on motion (.pdfs)
  Patel 2014 Neuroimage
  Power 2014 Neuroimage
  * Scheinost 2014 Neuroimage
  * Beall & Lowe 2014 Neuroimage

Week 24: ICA and motion (.pdfs)
  Monwinckel 2012 Neuroimage
  Tyzska 2013 Cereb Cortex
  Pruim 2015 Neuroimage
  Pruim 2015b Neuroimage

Week 25: taking stock (.pdfs)
  Buckner & Yeo 2013 Nat Neuro
  Power 2014 Neuron
  Raichle 2015 Phil Trans B

Week 26: still taking stock (.pdfs)
  Gusnard & Raichle 2001 NRN
  Raichle & Mintun 2006 ARN
  Buzsaki 2007 Neuron

Week 27: moment-to-moment signals (.pdfs)
  Fox 2005 Nat Neuro
  Fox 2007 Neuron
  Boly 2007 PNAS
  * Sadaghiaini 2013 Neuroimage

Week 28: structural-functional links (.pdfs)
  Hagmann 2008 PLoS Biol
  Honey 2008 PNAS
  Alstott 2009 PLoS Comp Biol
  Deco 2009 PNAS
  * Deco 2011 NRN
  * Sporns 2012 Neuroimage

Week 29: important nodes in functional networks? (.pdfs)
  Buckner 2009 J Neurosci
  Cole 2010 Neuroimage
  Tomasi 2015 Cereb Cortex
  Power 2013 Neuron
  * Yeo 2014 J Neurosci
  * Braga 2013 J Neurosci

Week 30: lesion studies (.pdfs)
  Gratton 2013 J Cog Neuro
  Warren 2014 PNAS
  Boes 2015 Brain
  * Woolgar 2010 PNAS
  * Nomura 2010 PNAS

Week 31: how will we study networks? (.pdfs)
  Wig 2011 ANYAS
  Zalesky 2010 Neuroimage
  Zalesky 2012 Neuroimage
  Zalesky 2012b Neuroimage
  * Smith 2011 Neuroimage
  * Cole 2010 Fr Sys Neuro

Week 32: wrapping up, methods overview (.pdfs)
  Murphy 2013 Neuroimage
  Birn 2012 Neuroimage
  Feinberg & Yacoub 2012 Neuroimage
  Wald 2012 Neuroimage
  Maclaren 2013 MRM

Week 33: wrapping up, "the resting state" (.pdfs)
  Biswal 2012 Neuroimage
  Biswal 2010 PNAS
  Snyder 2012 Neuroimage
  Binder 2012 Neuroimage
  Lowe 2012 Neuroimage


Now you decide.