- "Twenty Historical 'Don'ts'." In: Catholic and Anti-Catholic History. New York: The America Press, n.d.
- "Second-Hand History." In: Catholic and Anti-Catholic History. New York: The America Press, n.d.
- “Life and Modern Biology,” The American Catholic Quarterly Review, Vol. XXIV, January/October 1899.
- "A Half-Century in Biology," The Catholic World, Vol. LXX, October 1899 - March 1900.
- “An Essay in Physiological Psychology,” The American Catholic Quarterly Review, Vol. XXV, January/October 1900.
- "Three Great Biologists: Theodor Schwann," The Catholic World, Vol. LXXI, April/September, 1900.
- "Claude Bernard, the Physiologist," The Catholic World, Vol. LXXI, April/September, 1900.
- "The Passion Play," The Catholic World, Vol. LXXII, October 1900 - March 1901.
- “Microbes and Medicine,” The American Catholic Quarterly Review, Vol. XXVII, January/October 1901.
- “Michael Servetus and Some Sixteenth Century Educational Notes,” The American Catholic Quarterly Review, Vol. XXVII, January/October 1901.
- "Laënnec, a Martyr to Science," The Messenger, Vol. II, Fifth Series, 1902.
- "By-Paths of History: The Church and Science in the Middle Ages," Records of the American Catholic Historical Society of Philadelphia, Vol. XIV, 1903.
- "Biographical Notes on Joseph O'Dwyer, the Inventor of Intubation," Records of the American Catholic Historical Society of Philadelphia, Vol. XIV, 1903.
- "Audubon the Naturalist," Records of the American Catholic Historical Society of Philadelphia, Vol. XV, 1904.
- "John Delavau Bryant," Records of the American Catholic Historical Society of Philadelphia, Vol. XV, 1904 (with Joseph Walsh).
- "Copernicus: Physician, Clergyman and Astronomer," Medical Library and Historical Journal, Vol. III, No. 1, 1905.
- “Boniface VIII – A Picture and an Anniversary,” The Catholic World, Vol. LXXX, October 1904/March 1905.
- "Silvio Pellico," The Catholic World, Vol. LXXX, October 1904/March 1905.
- “The Present Position of Darwinism,” The Catholic World, Vol. LXXX, October 1904/March 1905.
- "Edmund Bailey O'Callahan of New York," Records of the American Catholic Historical Society of Philadelphia, Vol. XVI, 1905.
- "Some Notes on Catholic Bibliography," Records of the American Catholic Historical Society of Philadelphia, Vol. XVI, 1905.
- "The Chevalier de la Luzerne," Records of the American Catholic Historical Society of Philadelphia, Vol. XVI, 1905.
- "Doctor Jedediah Vincent Huntington and the Oxford Movement in America," Part II, Records of the American Catholic Historical Society of Philadelphia, Vol. XVI, 1905.
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- "Vesalius as a Horrible Example," The Messenger, Vol. VII, Sixth-Series, 1905.
- "Vesalius, the Anatomist, and his Times," The Messenger, Vol. VII, Sixth-Series, 1905.
- “Basil Valentine, a Great Pre-Reformation Chemist,” The American Catholic Quarterly Review, Vol. XXXI, January/October 1906.
- "On the Use of Discarded Street Cars in the Open-Air Treatment of Tuberculosis," International Clinics, Vol. II, Sixteenth Series, 1906.
- “Geography and the Church in the Middle Ages,” The American Catholic Quarterly Review, Vol. XXXII, January/October 1907.
- "Care of the Mentally Afflicted in Old Catholic Times," The Rosary Magazine, Vol. XXX, January/June, 1907.
- "Medieval University," The Rosary Magazine, Vol. XXX, January/June, 1907.
- “Lord Kelvin,” The Catholic World, Vol. LXXXVII, October 1907 – March 1908.
- “The Church and Experimental Method,” The American Catholic Quarterly Review, Vol. XXXIII, January/October 1908.
- “Spanish-American Education,” The American Catholic Quarterly Review, Vol. XXXIII, No. 131, July 1908.
- "Some Curiosities of Lead Poisoning," International Clinics, Vol. II, 1908.
- “The Church and Astronomy Before and After Galileo,” The American Catholic Quarterly Review, Vol. XXXIII, January/October 1908.
- "Women in Medicine," International Clinics, Vol. III, Nineteenth-Series, 1909.
- “Science at the Medieval Universities,” Popular Science Monthly, Vol. LXXVIII, January/June, 1911.
- "A Leader in Modern Surgery: Lord Lister," The Catholic World, Vol. XCV, April/September, 1912.
- "Andreas Vesalius (1514-1564)." In: Twelve Catholic Men of Science. London: Catholic Truth Society, 1912.
- “John R.G. Hassard,” The Catholic World, Vol. XCVII, April/September 1913.
- “Science and Religion, Then and Now,” The Catholic World, Vol. XCIX, April/September 1914.
- “Keeping Up the Protestant Tradition,” The Catholic World, Vol. CI, April/September 1915.
- "American Philosophy of History Fifty Years Ago," The Catholic World, Vol. C, October 1914/March 1915.
- "Some Changes in Religious Feelings in two Generations," The Catholic World, Vol. C, October 1914/March 1915.
- "The Warfare of Theology with Science Twenty Years After," The Catholic World, Vol. C, October 1914/March 1915.
- “Andrew Shipman,” The Catholic World, Vol. CII, October 1915/March 1916.
- “Some Chapters in the History of Feminine Education,” Part II, The Catholic World, Vol. CII, October 1915/March 1916.
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- “Cervantes, Shakespeare and Some Historical Background,” The Catholic World, Vol. CIII, April 1915/September 1916.
- “The Evolution of Man,” Part II, The Catholic World, Vol. CIII, April 1915/September 1916.
- “The Care of the Dependent Poor,” The Catholic World, Vol. CIII, No. 618, September 1916.
- “The Care of Children and the Aged,” The Catholic World, Vol. CIV, October 1916/March 1917.
- “The Story of Organized Care of the Insane and Defectives,” The Catholic World, Vol. CIV, October 1916/March 1917.
- “Dr. John B. Murphy,” The Catholic World, Vol. CIV, October 1916/March 1917.
- “Luther and Social Service,” The Catholic World, Vol. CIV, October 1916/March 1917.
- “Brother Potamian,” The Catholic World, Vol. CV, April/September 1917.
- “Herbert Spencer: A Fallen Idol,” The Catholic World, Vol. CV, April/September 1917.
- “Abbé Breuil and the Cave Men Artists,” The Ecclesiastical Review, Vol. LVII, September 1917.
- “Superstitions Old and New,” The Catholic World, Vol. CVI, October 1917/March 1918.
- “Alcohol in Medicine Fifty Years Ago and Now,” The Catholic World, Vol. CVI, October 1917/March 1918.
- “An Apostle of the Italians,” The Catholic World, Vol. CVII, April/September 1918.
- "The Priest and Post-Mortem Examinations," The Ecclesiastical Review, Vol. LVIII, 1918.
- "What Surgery Owes to Military Surgery: A Great Pioneer in Clinical Surgery," International Clinics, Vol. III, Twenty-Eighth Series, 1918.
- "A Convert Scientist and His Work," The Catholic World, Vol. CVIII, October 1918/March 1919.
- “Mediæval Science,” The Catholic World, Vol. CIX, April/September 1919.
- “The Church and Peace Movements in the Past,” The American Catholic Quarterly Review, Vol. XLVII, N°. 185, January 1922.
- “A Papal Curiosity in New York,” The Catholic World, Vol. CXIV, March 1922.
- "Healing Religions in the United States," Studies: An Irish Quarterly Review, Vol. 13, No. 52, December 1924.
- "Forget the Pope - No!," The Forum, September 1929.
- “Hysteria and Hypnotism,” The Fortnightly Review, Vol. XL, No. 6, June 1933.
- “Cures,” The Fortnightly Review, Vol. XLI, No. 2, February 1934.
- “Human Luminosity and Temperature,” The Fortnightly Review, Vol. XLI, No. 8, August 1934.
- "Catholic Contributions to the Ethical Sciences." In: Catholic Builders of the Nation. New York: Catholic Book Company, 1935, pp. 22–50.
- "Life is Sacred," The Forum, December 1935.
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