Textbooks (recommended: from basic to more specific topics)
 
Basics (overview - not technical)

Utts JM. (2004). Seeing Through Statistics. Belmont: Thomson.

Gigerenzer G (2002). Calculated risks. New York: Simon & Schuster.

Huff D.(1993). How to lie with statistics. Norton.
 
Basics

Moore DS, McCabe GP (2006). Introduction to the practice of statistics. New York: Freeman.

Mitchell MN (2015). Stata for the Behavorial Sciences. Stata Press
Good PI, Hardin JW (2012). Common Errors in Statistics (and How to Avoid Them), 4th ed. New York: Wiley.
van Belle G (2008). Statistical Rules of Thumb. New York: Wiley.
Altman D, Gardner M (2000). Statistics with confidence. London: British Medical Journal Books.
Freedman D, Pisani R, Purves R (2007). Statistics, 4th ed. Int.Student Edition. Norton.
Mitchell MN (2012).Interpreting and visualizing regression models using Stata. Stata Press
Wooldridge JM (2009). Introductory Econometrics, 4th ed. Int.Student Edition. South-Western.
Cameron AC, Pravin KT (2010). Microeconometrics Using Stata Revised Edition. Stata Press.
Freedman D. (2006). Statistical Models: Theory and Practice. Cambridge University Press.
 
Causality
Freedman D. (2010). Statistical Models and Causal Inference: A Dialogue with the Social Sciences. Cambridge University Press.
Pearl J. (2016). Causal Inference in Statistics. A Primer. New York: Wiley.
Imbens G., Rubin D. (2015). Causal Inference for Statistics, Social, and Biomedical Sciences. An Introduction. Cambidge University Press.
Turner S (Edt) (2010). Causality: Vol.1-4. Los Angeles: Sage.
 
Sampling Design
Groves RM, Fowler FJ (2004). Survey Methodology. New York: Wiley.
Levy PS, Lemeshow S (2008). Sampling of Populations. New York: Wiley.
Cochran WG (1977). Sampling Techniques. New York: Wiley.
 
Study Design
Observational (Cohort and Case Control)
      Utts JM. (2004). Seeing Through Statistics. Belmont: Thomson.
      Rothman KJ (2012). Epidemiology: An Introduction, 3rd ed.. Oxford University Press..
      Rothman KJ et al. (2013). Modern Epidemiology, 3rd ed.. Philadelphia: Lippincott Williams & Wilkins.
      Khandker SR et al. (2009). Handbook on Impact Evaluation. World Bank Pubn.
      Cochran WG (1983). Planning and Analysis of Observational Studies. New York: Wiley.
      Rosenbaum PR (2002). Observational Studies. New York: Springer.
      Schlesselman JJ (1982). Case-Control Studies, Oxford University Press.
Experimental
      Kirk RE (2012). Experimental Design: Procedures for the Behavioral Sciences, 4th ed.. Sage.
      Underwood A (1998). Experiments in ecology. Cambridge University Press.
      Federer WT (2007). Variations on Split Plot and Split Block Experiment Designs. New York: Wiley.
      Mead R (1988). The design of experiments, Statistical principles for practical application. Cambridge University Press.
 
Categorical Data Analysis

Long JS, Freese J (2014). Regression for Categorical Dependent Variables Using Stata. 3 Rev ed. Stata Press.

Agresti A (2007). Introduction to categorical data analysis, 2nd ed.. New York: Wiley.

Hosmer DW, Lemeshow S (2000). Applied Logistic Regression  New York: Wiley.
Agresti A (2002). Categorical data analysis. New York: Wiley.
 
Longitudinal and Multilevel
Rabe-Hesketh S, Skrondal A (2012). Multilevel and Longitudinal Modeling Using Stata, 3rd ed.  Vol. 1-2. Stata Press.
Singer JD, Willett JB (2003). Applied Longitudinal Data Analysis: Modeling Change and Event Occurrence. Oxford University Press.
Wooldridge JM (2010). Econometric Analysis of Cross Section and Panel Data, 2nd ed.. Cambridge: The MIT Press.
 
Time Series
Becketti S (2013). Introduction to Time Series Using Stata. Stata Press.
Chatfield C (2003). The analysis of time series, 6th ed.. Chapman & Hall.
 
Survival Analysis
Cleves M et al.(2010). An Introduction to Survival Analysis Using Stata, 3rd ed.. Stata Press.
Hosmer DW, Lemeshow S (1999). Applied Survival Analysis. New York: Wiley.
 
Medical Research
Rothman KJ (2012). Epidemiology: An Introduction, 3rd ed.. Oxford University Press..
Rothman KJ et al. (2013). Modern Epidemiology, 3rd ed.. Philadelphia: Lippincott Williams & Wilkins.
Altman D (1992). Practical Statistics for Medical Research. London: Chapman.
Altman D, Gardner M (2000). Statistics with confidence. London: British Medical Journal Books.
Mitchell MN (2012).Interpreting and visualizing regression models using Stata. Stata Press
Chow SC, Shao J, Wang H (2003). Sample Size Calculations in Clinical Research. New York: Dekker.
 
Econometrics
Wooldridge JM (2009). Introductory Econometrics, 4th ed. International Student Edition, South-Western.
Cameron AC, Pravin KT (2010). Microeconometrics Using Stata Revised ed.. Stata Press.
Mitchell MN (2012).Interpreting and visualizing regression models using Stata. Stata Press

Baum CF (2006). An Introduction to Modern Econometrics Using Stata. Stata Press.

Freedman D. (2010). Statistical Models and Causal Inference: A Dialogue with the Social Sciences.Cambridge University Press.
Freedman D. (2006). Statistical Models: Theory and Practice. Cambridge University Press.
Khandker SR et al. (2009). Handbook on Impact Evaluation. World Bank Pubn.
Angrist JD, Pischke JS (2008). Mostly Harmless Econometrics: An Empiricist's Companion. Princeton University Press.
Wooldridge JM (2010). Econometric Analysis of Cross Section and Panel Data, 2nd ed.. Cambridge: The MIT Press.
 
Statistics and Evolution
Klein S (2004). Alles Zufall. Hamburg: Rowohlt. (German).
Gigerenzer G (2001). Simple heuristics that make us smart. Oxford University Press.
 
Dictionary and Encyclopedia
Armitage P, Colton T (2005). Encyclopedia of Biostatistics: Vol.1-8. New York: Wiley.
 
Resources