Manga
Ongoing Anthology
Yuri Hime (百合姫) - bimonthly, published by Ichijinsha. Official website.
Hirari (ひらり) - quarterly, published by Shinshokan. Official website.
OKS COMIX Yuri Series (OKS COMIX 百合シリーズ) - bimonthly, adult content, published by OKS. Official website (NSFW).
Dolce (百合アンソロジー dolce) - published by Enterbrain, Inc. This is the yuri twin of Amaro magazine. Official website.
Yuri Hime Wildrose (百合姫Wildrose) - published by Ichijinsha, adult content. Discontinued after 6 volumes and relaunched as Girls Love. Relaunched in July 2013
Discontinued Anthology
Tsubomi Webcomic (つぼみwebコミック) - biweekly, online publication with short specials by authors featured in the Tsubomi magazine.
Tsubomi (つぼみ) - published by Houbunsha. Cancelled after 21 volumes in 2012. Official website.
Yurikan (百合缶) - published by Kadokawa Contents Gate. Discontinued after 3 volumes in 2011.
Comic Lily (comicリリィ) - published by RICE RIVER COMICS. Discontinued after 5 volumes in 2010.
Yuri Hime S (百合姫S) - published by Ichijinsha, targeted towards a male demographic. Discontinued after 14 volumes and merged with Yuri Hime in 2010.
Girls Love - published by Ichijinsha, adult content. Discontinued after 2 volumes.
Petit Yuri Hime (Petit百合姫) - published by Ichijinsha, a special booklet that came with Yuri Hime 11, featuring mini-sequels to various series in the Yuri Hime magazines and other short stories.
Sayuri-hime (小百合姫) - published by Ichijinsha. A special mini-edition of Yuri Hime magazine with extremely short manga stories.
Yuri Shimai (百合姉妹) - published by Ichijinsha. Discontinued after 5 volumes and relaunched as Yuri Hime.
Yuri Shoujo (百合少女) - published by Cosmic Shuppan.