MISERY is in our genes: A linguistic analysis of the human genome

A talk given at BAHFEST Texas. A Bad Ad Hoc Hypothesis on words in the human genome

Transcript

1. Claire McWhite MISERY is in our genes A linguistic analysis of the human genome
2. The language(s) of life DNA code Amino acid protein code CTGCATGAATATAGGATATGTGAAGCA L H E Y R I C E A CUGCAUGAAUAUAGGAUAUGUGAAGCA RNA DNA Protein RNA DNA Protein
3. DNA text analysis CATCACAAAGAAGTTTCTCAGAATGCTTCTCTCTAGTTTTTGTGTGAAGATATA TCCTTTTCCATCATAGGCCTCTAAGCTCTCCAAATGTCCACTTGCAGATTCTA CAAAAAGAGTGTTTCAAAACTGCTCTCTCAAAAGTAAGGTTCAACTTTTTGAG TTTAATACACACATCACATAGAAGCTTCTGAGAATGCTTCCGTCTAGTGTTTG TGTTAAGATATTCCCGTTTCCAACGAAGGCTTCAAAGCGGTCAAAATATCCTC TTGCAGATACTACAAAAAGCGTGTATCAAAACTGCTCCATGAAAAGGTATGTT CAACCCTGTGAGTTCAATGTAAACATCACAAAGAAGTTTCTGAGAATGCTTGT GTCTGTTTTTTTGTGTGAAGATGTATCCTTTTCCACCATAGTCCTCAAAGCTCT CCAAATGTGCACTTGCAGATTCTACAAAAAGTGTGTTTCAAAACTCCTCTACC AAAAGAAAGGTTCAACTCTGTGAGTTTAATGCCCAGATCACAGACAAGTTTCT TAGGATGCTTCTGTCTAATGTTTATGTGAAGATATTCCCGTTTCCAACTAAGG CCTCAAAGAAGTCCAAATATCCAATTGCAGATTCTACAAAAAGAGCATTT >BA000005.3 Homo sapiens genomic DNA, chromosome 21q
4. CATCACAAAGAAGTTTCTCAGAATGCTTCTCTCTAGTTTTTGTGTGAAGATATA TCCTTTTCCATCATAGGCCTCTAAGCTCTCCAAATGTCCACTTGCAGATTCTA CAAAAAGAGTGTTTCAAAACTGCTCTCTCAAAAGTAAGGTTCAACTTTTTGAG TTTAATACACACATCACATAGAAGCTTCTGAGAATGCTTCCGTCTAGTGTTTG TGTTAAGATATTCCCGTTTCCAACGAAGGCTTCAAAGCGGTCAAAATATCCTC TTGCAGATACTACAAAAAGCGTGTATCAAAACTGCTCCATGAAAAGGTATGTT CAACCCTGTGAGTTCAATGTAAACATCACAAAGAAGTTTCTGAGAATGCTTGT GTCTGTTTTTTTGTGTGAAGATGTATCCTTTTCCACCATAGTCCTCAAAGCTCT CCAAATGTGCACTTGCAGATTCTACAAAAAGTGTGTTTCAAAACTCCTCTACC AAAAGAAAGGTTCAACTCTGTGAGTTTAATGCCCAGATCACAGACAAGTTTCT TAGGATGCTTCTGTCTAATGTTTATGTGAAGATATTCCCGTTTCCAACTAAGG CCTCAAAGAAGTCCAAATATCCAATTGCAGATTCTACAAAAAGAGCATTT >BA000005.3 Homo sapiens genomic DNA, chromosome 21q It’s mostly cats
5. …CAATCAAATCAACAATCATCAT… …CATCATCACATCATCAT… …CATCATCACAATCATCAT…
6. CATATTAC
7. The language(s) of life DNA code Amino acid protein code CTGCATGAATATAGGATATGTGAAGCA L H E Y R I C E A CUGCAUGAAUAUAGGAUAUGUGAAGCA RNA DNA Protein RNA DNA Protein
8. >sp|Q7Z4N2|TRPM1_HUMAN Transient receptor potential cation channel subfamily M member MKDSNRCCCGQFTNQHIPPLPSATPSKNEEESKQVETQPEKWSVA KHTQSYPTDSYGVLEFQGGGYSNKAMYIRVSYDTKPDSLLHLMVKD WQLELPKLLISVHGGLQNFEMQPKLKQVFGKGLIKAAMTTGAWIFTG GVSTGVISHVGDALKDHSSKSRGRVCAIGIAPWGIVENKEDLVGKDV TRVYQTMSNPLSKLSVLNNSHTHFILADNGTLGKYGAEVKLRRLLEK HISLQKINTRLGQGVPLVGLVVEGGPNVVSIVLEYLQEEPIPVVICDGS GRASDILSFAHKYCEEGGIINESLREQLLVTIQKTFNYNKAQSHQLFAI IMECMKKKELVTVFRMGSEGQQDIEMAILTALLKGTNVSAPDQLSLA LAWNRVDIARSQIFVFGPHWPPLGSLAPPTDSKATEK… What hidden messages are there in this human pain receptor protein?
9. >sp|Q7Z4N2|TRPM1_HUMAN Transient receptor potential cation channel subfamily M member MKDSNRCCCGQFTNQHIPPLPSATPSKNEEESKQVETQPEKWSVA KHTQSYPTDSYGVLEFQGGGYSNKAMYIRVSYDTKPDSLLHLMVKD WQLELPKLLISVHGGLQNFEMQPKLKQVFGKGLIKAAMTTGAWIFTG GVSTGVISHVGDALKDHSSKSRGRVCAIGIAPWGIVENKEDLVGKDV TRVYQTMSNPLSKLSVLNNSHTHFILADNGTLGKYGAEVKLRRLLEK HISLQKINTRLGQGVPLVGLVVEGGPNVVSIVLEYLQEEPIPVVICDGS GRASDILSFAHKYCEEGGIINESLREQLLVTIQKTFNYNKAQSHQLFAI IMECMKKKELVTVFRMGSEGQQDIEMAILTALLKGTNVSAPDQLSLA LAWNRVDIARSQIFVFGPHWPPLGSLAPPTDSKATEK… What hidden messages are there in this human pain receptor protein?
10. >sp|Q7Z4N2|TRPM1_HUMAN Transient receptor potential cation channel subfamily M member MKDSNRCCCGQFTNQHIPPLPSATPSKNEEESKQVETQPEKWSVA KHTQSYPTDSYGVLEFQGGGYSNKAMYIRVSYDTKPDSLLHLMVKD WQLELPKLLISVHGGLQNFEMQPKLKQVFGKGLIKAAMTTGAWIFTG GVSTGVISHVGDALKDHSSKSRGRVCAIGIAPWGIVENKEDLVGKDV TRVYQTMSNPLSKLSVLNNSHTHFILADNGTLGKYGAEVKLRRLLEK HISLQKINTRLGQGVPLVGLVVEGGPNVVSIVLEYLQEEPIPVVICDGS GRASDILSFAHKYCEEGGIINESLREQLLVTIQKTFNYNKAQSHQLFAI IMECMKKKELVTVFRMGSEGQQDIEMAILTALLKGTNVSAPDQLSLA LAWNRVDIARSQIFVFGPHWPPLGSLAPPTDSKATEK… What hidden messages are there in this human pain receptor protein?
11. >sp|Q7Z4N2|TRPM1_HUMAN Transient receptor potential cation channel subfamily M member MKDSNRCCCGQFTNQHIPPLPSATPSKNEEESKQVETQPEKWSVA KHTQSYPTDSYGVLEFQGGGYSNKAMYIRVSYDTKPDSLLHLMVKD WQLELPKLLISVHGGLQNFEMQPKLKQVFGKGLIKAAMTTGAWIFTG GVSTGVISHVGDALKDHSSKSRGRVCAIGIAPWGIVENKEDLVGKDV TRVYQTMSNPLSKLSVLNNSHTHFILADNGTLGKYGAEVKLRRLLEK HISLQKINTRLGQGVPLVGLVVEGGPNVVSIVLEYLQEEPIPVVICDGS GRASDILSFAHKYCEEGGIINESLREQLLVTIQKTFNYNKAQSHQLFAI IMECMKKKELVTVFRMGSEGQQDIEMAILTALLKGTNVSAPDQLSLA LAWNRVDIARSQIFVFGPHWPPLGSLAPPTDSKATEK… What hidden messages are there in this human pain receptor protein? “Chimpanzee Locomotor Energetics and the Origin of Human Bipedalism” Sockol et al. PNAS, 2007
12. Script that searches for every word in the dictionary in human protein sequences
13. • PIGTAIL • GIGGLE • CARAVAN • KITTEN • GAGA • MIDRIFF • LIGHT • FRESH • DAISY • GLEE • FAWN • LIFE There are some pleasant words in our genome
14. MISERY LIES ASH APATHY ANGST SAD PAIN TEARS REGRET FECES FIERY RESENT LICE SEWER LEAKAGE FEVER AILMENT ASHES GRIM ALLERGY FETID EVIL FLIES WAR CRY WAIL DARK HELP DIE DYING DEATH DEAD DECAY DED ACNE ACRID CYST DIRT FAIL FEAR FICKLE FIEND FILTH FLIES GRIEF HATE ITCH LAMENT GASSY MEASLY MESS
15. Sentiment analysis of the human genome
16. Sentiment analysis of the human genome
17. Why is the human genome so :/ ? Hypothesis: Humanity has been through a lot
18. CYST FEVER AILMENT ALLERGY LEAKAGE ITCH
19. ASHES ACRID MISERY
20. GASSY FECES
21. The word ‘HAPPY’ isn’t found even once in the human genome
22. Some organisms have happiness in their genomes
23. ‘HAPPY’ is found in multiple parasite genomes ◦ Toxoplasma gondii ◦ Low-effort parasitic lifestyle in cat digestive tracts
24. A happy bacterium ◦ Sphingobium phenoxybenzoativorans ◦ Lives in soil ◦ Eats pesticides
25. http://www.nite.go.jp/
26. ACCCATGCGAACAAAAGC T H A N K S ACCCAUGCGAACAAAAGC !