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Chromatography: Be a Color Detective

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Key Concepts
Chromatography, inks, color molecules, primary colors
Sabine De Brabandere, PhD, Science Buddies
Black marker on paper filter


Do you love bright and vibrant colored art supplies? Do you ever wonder how these colors are made? 

The variety of colors comes from colored molecules that are mixed into the material used to make the product. Some colored molecules are synthetic (or manmade), like the famous Yellow #5 found in food dyes. Others are extracted from natural sources, such as carotenoid (pronounced kuh-RAH-tuh-noid) molecules, which make your carrot look orange, and can be extracted from saffron. 

Even though our eyes see a single color, is the color of a marker, for instance, the result of one color molecule or is a mix of color molecules responsible? This science project will help you in your quest to find the hidden colors in water-soluble markers.

This activity is not recommended for use as a science fair project. Good science fair projects have a stronger focus on controlling variables, taking accurate measurements, and analyzing data. To find a science fair project that is just right for you, browse our library of over 1,200 Science Fair Project Ideas or use the Topic Selection Wizard to get a personalized project recommendation.


We see objects because they reflect light into our eyes. Some molecules only reflect specific colors; it is this reflected, colored light that reaches our eye and tells our brain that we are seeing a certain color.

Oftentimes, the colors that we see are a combination of the light reflected by a mixture of different-colored molecules. Even though our eye sees the result as one color, each of the separate color molecules stays true to its own color in the mixture. One way to see this is to find a way to separate out the individual color molecules from the mixture, to reveal their unique colors.

Paper chromatography is a method used by chemists to separate the constituents (or parts) of a mixture. The components of the mixture start out in one place on a strip of special paper. A solvent (such as water, oil or isopropyl alcohol) is allowed to run up the paper. As it does so, it takes part of the mixture with it. Different molecules run up the paper at different rates. As a result, components of the mixture separate and, in this case, become visible as strips of color on the chromatography paper. Will your marker ink show different colors as you test it on the filter paper


  • White coffee filters (2)
  • Scissors
  • Pencils (2)
  • Ruler
  • Markers (not permanent): brown, yellow and any other colors you would like to test
  • Tall water glasses (2), 4 inches or taller
  • Water
  • Binder clips or Clothespins (2)
  • Drying rack or additional tall water glasses (2)


  1. Cut the coffee filters into strips that are each about one inch wide and at least four inches long. Cut at least two strips, one to test brown and one to test yellow. Cut an extra strip for each additional color you would like to test.
  2. Draw a pencil line across the width of each paper strip, about one centimeter from the bottom end.
  3. Take the brown marker and a paper strip and draw a short (about 1 cm) line on the middle of the pencil line. Your marker line should not touch the sides of your strip
  4. Use a pencil to write the color of the marker you just used on the top end of the strip. Note – do not use the colored marker or pen to write on the strips, as the color or ink will run during the test.
  5. Repeat the previous two steps with a yellow marker and all the additional colors you would like to test.
  6. Hold a paper strip next to one of the tall glasses (on the outside of it), aligning the top of the strip with the rim of the glass, then slowly add water to the glass until the water level just reaches the bottom end of the paper strip. Repeat with the second glass.


  1. Fasten the top of a strip (the side farthest from the marker line) to the pencil with a binder clip or clothespin. Pause for a moment. Do you expect this color to be the result of a mixture of colors or the result of one color molecule?
  2. Hang the strip in one of the glasses that is partially filled with water by letting the pencil rest on the glass rim. The bottom end of the strip should just touch the water level. If needed, add water to the glass until it is just touching the paper. Note - it is important that the water level stays below the marker line on the strip.
  3. Leave the first strip in its glass as you repeat the previous two steps with the second strip and the second glass.
  4. Watch as the water rises up the strips. What happens to the colored lines on the strips? Does the color run up as well? Do you see any color separation?
  5. When the water level is about one centimeter from the top (this may take up to 10 minutes), remove the pencils with the strips attached from the glasses. If you let the strips run too long, the water can reach the top of the strips and distort your results.
  6. Write down your observations. Did the colors run? Did they separate in different colors? Which colors can you detect? Which colors are on the top (meaning they ran quickly) and which are on the bottom (meaning they ran more slowly)?
  7. Hang your strips to dry in the empty glasses or on a drying rack. Note that some colors might keep running after you remove the strips from the water. You might need longer strips to see the full spectrum of these colors. The notes you took in the previous step will help you remember what you could see in case the colors run off the paper strip.
  8. If you have more prepared strips, put them in as you did with the first two strips, and run them until they are completed, similar to the first strip. What do you observe this time? Do these colors run in a similar way as your first set?
  9. Repeat the procedure, if needed, until all the strips are done.
  10. Let all the strips completely dry.
  11. Look at your strips. How many color components does each marker color have? Can you identify which colors are the result of a mixture of color components and which ones are the result of one color molecule? Are individual color components brightly colored or dull in color? How many different colors can you detect in total?

Extra: Most watercolor marker inks are colored with synthetic color molecules. Artists often like to work with natural dyes. It is fairly easy to make your own dye from colorful plants or spices like blueberries, red beets or turmeric. To make your own dye, finely chop the plant material, place it in a sauce pan and add just enough water to cover the plant material. Let the mixture simmer covered on the stove for approximately 10 to 15 minutes. If, at this point, the color of your liquid is too faint, you may want to remove the lid of the saucepan and continue boiling until some liquid has evaporated and a more concentrated color is obtained. Let it cool and strain when needed. Now you have natural dye. To investigate the color components of this dye, repeat the previous procedure, but replace the marker line with a drop of natural dye. A dropper will help create a nice drop. Let the drop of dye dry before running the paper strip.  Would the color of your natural dye be the result of a mixture of color molecules or would it be the result of one specific color molecule? Does the marker of the same color as your natural dye run in a similar way as your natural dye?

Extra: In this activity, you use water-soluble markers in combination with water as a solvent. You can test permanent markers using isopropyl rubbing alcohol as a solvent. Do you think similar combinations of color molecules are used to color similar-colored permanent markers?

Extra: You can investigate other art supplies like paints, pastels or inks in a similar way. Be sure to always choose a solvent that dissolves the material that is being tested to run the chromatography test. Isopropyl rubbing alcohol, vegetable oil and salt water are some examples of solvents used to perform paper chromatography tests. 

Observations and Results

Did you find that brown is made up of several types of color molecules, whereas yellow only showed a single yellow color band?

Marker companies combine a small subset of color molecules to make a wide range of colors, much like you can mix paints to make different colors. But nature provides an even wider range of color molecules and also mixes them in interesting ways. As an example, natural yellow color in turmeric is the result of several curcuminoid molecules,  and the brown pigment umber (obtained from a dark brown clay) is caused by the combination of two color molecules: iron oxides (which have a rusty red-brown color) and manganese oxides (which add a darker black-brown color).

In this activity, you investigated the color components using coffee filters as chromatography paper. Your color bands might be quite wide and artistic, while scientific chromatography paper would yield narrow bands and more-exact results.

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  1. Throw away the paper strips and wash the glasses.

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