@STRING{ANNSTAT	= {The Annals of Statistics} }
@string{JASA= {Journal of the American Statistical Association}}
@string{JC = {Journal of Classification}}
@string{JSPI = {Journal of Statistical Planning and Inference}}
@string{JRSSB = {Journal of the Royal Statistical Society, Series B}}
@string{PNAS = {Proc. Natl. Acad. Sci.}}
@string{SAGMB = {Statistical Applications in Genetics and Molecular Biology}}

@Article{	  benjamini&hochberg95,
  author	= {Y. Benjamini and Y. Hochberg},
  title		= {Controlling the false discovery rate: a practical and
		  powerful approach to multiple testing},
  journal	= {JRSSB},
  year		= {1995},
  optkey	= {},
  volume	= {57},
  optnumber	= {},
  optmonth	= {},
  pages		= {289--300},
  optnote	= {},
  optannote	= {}
}

@Article{	  benjamini&yekutieli01,
  author	= {Y. Benjamini and D. Yekutieli},
  title		= {The control of the false discovery rate in multiple
		  hypothesis testing under dependency},
  journal	= ANNSTAT,
  year		= {2001},
  optkey	= {},
  volume	= {29},
  number	= {4},
  pages		= {1165--1188}
}

@Book{Chambers98,
   author = {J. M. Chambers},
   title = {Programming with Data: A Guide to the S Language},
   publisher = {Springer-Verlag, New York},
   year = {1998}
}

@Unpublished{	  dudoit&shaffer02,
  author	= {S. Dudoit and J. P. Shaffer and J. C. Boldrick},
  title		= {Multiple hypothesis testing in microarray experiments},
  note		= {{\it Statistical Science}, to appear, preprint 
available at UC
		  Berkeley, Division Biostatistics working paper series:
		  2002-110, {\tt http://www.bepress.com/ucbbiostat/paper110}},
  optkey	= {},
  optmonth	= {},
  year		= {2002},
  optannote	= {}
}

@Article{DudoitetalStatSci03,
  author	= {S. Dudoit and J. P. Shaffer and J. C. Boldrick},
  title		= {Multiple hypothesis testing in microarray experiments},
  journal		= {Statistical Science},
  optkey	= {},
  optmonth	= {},
  year		= {2003},
  volume = 	 {18},
  number = 	 {1},
  pages = 	 {71--103},
  optannote	= {}
}

@Unpublished{	  ge&dudoit,
  author	= {Y. Ge and S. Dudoit and T. P. Speed},
  title		= {Resampling-based multiple testing for microarray data
		  analysis},
  note		= {{\it Test}, to appear, preprint available at the
		  Technical Report \#633, Jan. 2003, the Department of
		  Statistics, UC Berkeley, {\tt
		  http://www.stat.berkeley.edu/tech-reports/index.html}},
  optkey	= {},
  optmonth	= {},
  year		= {2003},
  optannote	= {}
}

@Article{	  golubetal,
  author	= {T. R. Golub and D. K. Slonim and P. Tamayo and C. Huard
		  and M. Gaasenbeek and J. P. Mesirov and H. Coller and M.L.
		  Loh and J. R. Downing and M. A. Caligiuri and C. D.
		  Bloomfield and E. S. Lander},
  title		= {Molecular classification of cancer: class discovery and
		  class prediction by gene expression monitoring},
  journal	= {Science},
  year		= {1999},
  optkey	= {},
  volume	= {286},
  optnumber	= {},
  optmonth	= {},
  pages		= {531--537},
  optnote	= {},
  optannote	= {}
}

@Article{	  hochberg88,
  author	= {Y. Hochberg},
  title		= {A sharper Bonferroni procedure for multiple tests of
		  significance},
  journal	= {Biometrika},
  year		= {1988},
  optkey	= {},
  volume	= {75},
  optnumber	= {},
  pages		= {800--802},
  optmonth	= {},
  optnote	= {},
  optannote	= {}
}

@Article{	  holm79,
  author	= {S. Holm},
  title		= {A simple sequentially rejective multiple test procedure},
  journal	= {Scand. J. Statist.},
  year		= {1979},
  optkey	= {},
  volume	= {6},
  optnumber	= {},
  pages		= {65--70},
  optmonth	= {},
  optnote	= {},
  optannote	= {}
}

@Article{Sidak67,
  author = 	 {Z.  \v{S}id\'{a}k},
  title = 	 {Rectangular confidence regions for the means of multivariate normal distributions},
  journal = 	 JASA,
  year = 	 {1967},
  OPTkey = 	 {},
  volume = 	 {62},
  OPTnumber = 	 {},
  pages = 	 {626-633},
  OPTmonth = 	 {},
  OPTnote = 	 {},
  OPTannote = 	 {}
}

@Article{	  shaffer95,
  author	= {J. P. Shaffer},
  title		= {Multiple hypothesis testing},
  journal	= {Annu. Rev. Psychol.},
  year		= {1995},
  optkey	= {},
  volume	= {46},
  optnumber	= {},
  pages		= {561--584},
  optmonth	= {},
  optnote	= {},
  optannote	= {}
}

@TechReport{KelesetalTechRep147,
  author = 	 {S. Kele\c{s} and M. J. van der Laan and S. Dudoit and S. E. Cawley},
  title = 	 {Multiple Testing Methods for {ChIP}-{Chip} High Density Oligonucleotide Array Data},
  institution =  {Division of Biostatistics, University of California, Berkeley},
  year = 	 {2004},
  OPTkey = 	 {},
  OPTtype = 	 {},
  number = 	 {147},
  OPTaddress = 	 {},
  OPTmonth = 	 {},
  OPTnote = 	 {},
  OPTannote = 	 {},
  url={www.bepress.com/ucbbiostat/paper147}
}

@Book{		  westfall&young93,
  author	= {P. H. Westfall and S. S. Young},
  opteditor	= {},
  title		= {Resampling-based multiple testing: {E}xamples and methods
		  for $p$-value adjustment},
  publisher	= {John Wiley \& Sons},
  year		= {1993},
  optkey	= {},
  optvolume	= {},
  optnumber	= {},
  optseries	= {},
  optaddress	= {},
  optedition	= {},
  optmonth	= {},
  optnote	= {},
  optannote	= {}
}

@Book{Dudoit&vdLaanMTBook,
  author =       {S. Dudoit and M. J. van der Laan},
  ALTeditor =    {},
  title =        {Multiple Testing Procedures and Applications to
Genomics},
  publisher =    {Springer},
  year =         {2004},
  OPTkey =       {},
  OPTvolume =    {},
  OPTnumber =    {},
  OPTseries =    {},
  OPTaddress =   {},
  OPTedition =   {},
  OPTmonth =     {},
  note =         {(In preparation)},
  OPTannote =    {}
}

@Article{DudoitetalMT1SAGMB04,
  author =       {S. Dudoit and M. J. van der Laan and K. S. Pollard},
  title =        {Multiple testing. {P}art {I}. {S}ingle-step procedures
for control of general {T}ype {I} error rates},
  journal =      SAGMB,
  year =         {2004},
  OPTkey =       {},
  volume =       {3},
  number =       {1},
  pages =        {Article 13},
  OPTmonth =     {},
  OPTnote =      {(To appear)},
  OPTannote =    {Technical Report 138, Division of Biostatistics,
University of California, Berkeley},
  url={www.bepress.com/sagmb/vol3/iss1/art13}
}

@Article{vdLaanetalMT2SAGMB04,
  author =       {M. J. van der Laan and S. Dudoit and K. S. Pollard},
  title =        {Multiple testing. {P}art {II}. {S}tep-down procedures
for control of the family-wise error rate},
  journal =      SAGMB,
  year =         {2004},
  OPTkey =       {},
  volume =       {3},
  number =       {1},
  pages =        {Article 14},
  OPTmonth =     {},
  OPTnote =      {(To appear)},
  OPTannote =    {Technical Report 139, Division of Biostatistics,
University of California, Berkeley},
  url={www.bepress.com/sagmb/vol3/iss1/art14}
}

@Article{vdLaanetalMT3SAGMB04,
  author =       {M. J. van der Laan and S. Dudoit and K. S. Pollard},
  title =        {Augmentation Procedures for Control of the
Generalized Family-Wise Error Rate and Tail Probabilities for the
Proportion of
False Positives},
  journal =      SAGMB,
  year =         {2004},
  OPTkey =       {},
  volume =       {3},
  number =       {1},
  pages =        {Article 15},
  OPTmonth =     {},
  OPTnote =      {},
  OPTannote =    {Technical Report 141, Division of Biostatistics,
University of California, Berkeley},
  url={www.bepress.com/sagmb/vol3/iss1/art15}
}

@Article{Pollard&vdLaanJSPI04,
  author =       {K. S. Pollard  and M. J. van der Laan},
  title =        {Choice of a null distribution in resampling-based
multiple testing},
  journal =      JSPI,
  year =         {2004},
  OPTkey =       {},
  volume =       {125},
  number =       {1--2},
  pages =        {85--100},
  OPTmonth =     {},
  OPTnote =      {},
  annote =       {The Third International Conference on Multiple
Comparisons}
}

@Article{Chiarettietal04,
  author =       {S. Chiaretti and X. Li and R. Gentleman and A. Vitale
and M. Vignetti and F. Mandelli and J. Ritz and R. Foa},
  title =        {Gene expression profile of adult T-cell acute
lymphocytic leukemia identifies distinct subsets of patients with
different response to therapy and survival},
  journal =      {Blood},
  year =         {2004},
  OPTkey =       {},
  volume =       {103},
  number =       {7},
  pages =        {2771--2778},
  OPTmonth =     {},
  OPTnote =      {},
  OPTannote =    {}
}