Bioinformatic analysis and functional predictions of selected regeneration-associated transcripts expressed by zebrafish microglia

Table 1 Transcripts enriched in zebrafish microglia/macrophages during retinal regeneration, without readily predicted human or mouse orthologs

Gene ID^a	Mod Log2FC^b	Zebrafish Symbol^c	ZFIN ID	Ensembl ID	Chromosome	Gene length	Protein length
P1	6.03	si:dkey-181f22.4	ZDB-GENE-160728-126	ENSDARG00000105643	7	9695 bp	513 aa
P2	5.17	si:ch73-112 l6.1	ZDB-GENE-091204-14	ENSDARG00000093126	21	17,924 bp	1025 aa
P3	2.92	zgc:174863	ZDB-GENE-080204-87	ENSDARG00000099476	6	7668 bp	290 aa
P4	2.14	si:dkey-56 m19.5	ZDB-GENE-030131-226	ENSDARG00000068432	7	4453 bp	526 aa
P5	7.91	si:ch211-105j21.9	ZDB-GENE-131127-499	ENSDARG00000097845	6	2369 pb	294 aa
P6	4.47	si:ch73-248e21.7	ZDB-GENE-120215-231	ENSDARG00000096331	3	3403 bp	480 aa
P7	3.56	si:ch211-191j22.3	ZDB-GENE-030131-4242	ENSDARG00000095459	21	2682 bp	99 aa
P8	7.87	si:ch73-256j6.2^†	ZDB-GENE-070705-223^†	ENSDARG00000071653	22	7566 bp	210 aa
P9	7.74	urp1	ZDB-GENE-100922-138	ENSDARG00000093493	14	2696 bp	154 aa
P10	5.32	xcl32a.1	ZDB-GENE-070912-31	ENSDARG00000093906	2	1199 bp	126 aa
P11	6.06	si:ch211-287n14.3	ZDB-GENE-131120-146	ENSDARG00000093650	18	165,070 bp	1809 aa
P12	2.03	pho	ZDB-GENE-030131-5935	ENSDARG00000035133	5	16,478 bp	2798 aa

^aGene ID: P1 to P12 correspond to the symbol used for each predicted protein subjected to bioinformatics analysis
^bMod Log2FC = Moderated Log2(Fold-Change), which is the log-ratio of the transcript’s expression values between microglia/macrophages and other retinal cells, corrected for lowly expressed transcripts, as determined in [30]
^cZebrafish Symbol corresponds to the symbol attributed to each gene by the ZFIN Zebrafish Nomenclature Conventions (https://wiki.zfin.org, [53] and Ensembl ID the symbol attributed by Ensembl (https://www.ensembl.org/, [54]. The prefix “Zgc:” indicates that this gene is represented by cDNAs generated by the ZGC project (https://wiki.zfin.org). The prefix “si” Sanger institute and indicates that this institution identified the gene. aa amino acid
^†Previously reported as “NA” in [30] with the same Esembl ID; has been updated here to current zebrafish symbol and ZFIN ID

ISSN: 1471-2164