Bio301: A Web-Based EST Annotation Pipeline That Facilitates Functional Comparison Studies

Table 1

Respiration-related GO terms are ranked at the top. The numbers in the second (tilapia) to sixth (zebrafish) columns are normalized to an average number of ESTs per 1000 ESTs from corresponding library. This normalization helps users understand the reason why certain GO terms are ranked at the top. In this table, respiration-related GO terms are ranked at the top because the axolotl gill has higher expression levels associated with these GO terms than the fish does.

Gene ontology ID	Tilapia_Gill no. of reads	Axolotl_Gill no. of reads	Salmon_Gill no. of reads	Stickleback_Gill no. of reads	Zebrafish_Gills no. of reads	Chi-square test	𝑃 value	Gene ontology terms	Classification
GO:0005833	1	298	74	0	85	10711.06	0	Hemoglobin complex	C
GO:0019825	9	298	74	0	85	10256.62	0	Oxygen binding	F
GO:0015671	9	298	74	0	85	10246.30	0	Oxygen transport	P
GO:0015669	9	298	74	0	85	10236.92	0	Gas transport	P
GO:0005344	9	298	74	0	85	10230.22	0	Oxygen transporter activity	F
GO:0044445	25	314	88	4	126	8748.77	0	Cytosolic part	C
GO:0005840	97	74	174	6	249	7440.77	0	Ribosome	C
GO:0020037	24	301	77	7	89	7292.60	0	Heme binding	F
GO:0046906	24	301	77	7	89	7292.60	0	Tetrapyrrole binding	F
GO:0003735	95	72	166	7	232	6607.10	0	Structural constituent of ribosome	F
GO:0030529	107	82	185	15	255	6033.01	0	Ribonucleoprotein complex	C
GO:0005829	45	326	107	20	150	5362.74	0	Cytosol	C
GO:0032991	168	455	317	83	397	5190.18	0	Macromolecular complex	C
GO:0005506	37	321	89	24	106	4427.26	0	Iron ion binding	F
GO:0001666	0	2	1	1	84	3853.64	0	Response to hypoxia	P
GO:0044444	237	465	373	149	476	3187.15	0	Cytoplasmic part	C
GO:0030097	3	0	1	2	87	3143.89	0	Hemopoiesis	P
GO:0048534	4	0	1	2	87	3068.34	0	Hemopoietic or lymphoid organ development	P
GO:0043228	139	143	219	57	294	2994.55	0	Non-membrane-bounded organelle	C
GO:0043232	139	143	219	57	294	2994.55	0	Intracellular non-membrane-bounded organelle	C
GO:0002520	4	0	1	2	87	2987.65	0	Immune system development	P
GO:0022892	57	319	105	42	143	2885.54	0	Substrate-specific transporter activity	F
GO:0005215	63	322	117	50	162	2543.00	0	Transporter activity	F
GO:0006412	118	87	178	47	246	2494.78	0	Translation	P