Gene Expression Literature Summary

• Symbol: Hoxb1
• Name: homeobox B1
• ID: MGI:96182

233 matching records from 233 references.

Summary by Age and Assay: Numbers in the table indicate the number of results matching the search criteria.

Age	E1.5	E2	E6.5	E7	E7.5	E8	E8.5	E9	E9.5	E10	E10.5	E11	E11.5	E12	E12.5	E13	E13.5	E14	E14.5	E15	E15.5	E16.5	E17	E17.5	E18	E18.5	E19.5	E	P
Immunohistochemistry (section)				1	1		2	2	5		5	1	3									1
In situ RNA (section)			1		8	5	10	5	20	2	13	1	7		3		3		1		3			1		1		2	3
Immunohistochemistry (whole mount)						1	2		2	4	4		2															1
In situ RNA (whole mount)			1	3	23	15	49	28	59	1	25		10		2						1							13
In situ reporter (knock in)						1	2		4	1	3		6		2				1
Northern blot											1		1		1		2		1		1	1				1			1
RT-PCR	1	1	1	1	2	2	4	1	5	1	5	1	2		1	1	1		2	1		1	1	1	1	1	1		1
cDNA clones					1		2		1																				2
RNase protection														1				1					1		1

Summary by Gene and Reference: Number indicates the number of results matching the search criteria recorded for each reference.
* Indicates detailed expression data entries available

Hoxb1  homeobox B1   (Synonyms: Hox-2.9)
Results	Reference
2	J:67399 Abu-Abed S, Dolle P, Metzger D, Beckett B, Chambon P, Petkovich M, The retinoic acid-metabolizing enzyme, CYP26A1, is essential for normal hindbrain patterning, vertebral identity, and development of posterior structures. Genes Dev. 2001 Jan 15;15(2):226-40
1*	J:49817 Acampora D, Avantaggiato V, Tuorto F, Briata P, Corte G, Simeone A, Visceral endoderm-restricted translation of otx1 mediates recovery of otx2 requirements for specification of anterior neural plate and normal gastrulation. Development. 1998 Dec;125(24):5091-104
2*	J:29276 Acampora D, Mazan S, Lallemand Y, Avantaggiato V, Maury M, Simeone A, Brulet P, Forebrain and midbrain regions are deleted in Otx2-/- mutants due to a defective anterior neuroectoderm specification during gastrulation. Development. 1995 Oct;121(10):3279-90
1	J:67296 Adams RH, Diella F, Hennig S, Helmbacher F, Deutsch U, Klein R, The cytoplasmic domain of the ligand ephrinB2 is required for vascular morphogenesis but not cranial neural crest migration. Cell. 2001 Jan 12;104(1):57-69
1	J:336097 Afzal Z, Lange JJ, Nolte C, McKinney S, Wood C, Paulson A, De Kumar B, Unruh J, Slaughter BD, Krumlauf R, Shared retinoic acid responsive enhancers coordinately regulate nascent transcription of Hoxb coding and non-coding RNAs in the developing mouse neural tube. Development. 2023 May 15;150(10)
1*	J:208763 Ahn Y, Mullan HE, Krumlauf R, Long-range regulation by shared retinoic acid response elements modulates dynamic expression of posterior Hoxb genes in CNS development. Dev Biol. 2014 Apr 1;388(1):134-44
1	J:69637 Alavizadeh A, Kiernan AE, Nolan P, Lo C, Steel KP, Bucan M, The wheels mutation in the mouse causes vascular, hindbrain, and inner ear defects. Dev Biol. 2001 Jun 1;234(1):244-60
1	J:223051 Albert M, Schmitz SU, Kooistra SM, Malatesta M, Morales Torres C, Rekling JC, Johansen JV, Abarrategui I, Helin K, The histone demethylase Jarid1b ensures faithful mouse development by protecting developmental genes from aberrant H3K4me3. PLoS Genet. 2013 Apr;9(4):e1003461
1	J:116889 Andersson O, Reissmann E, Ibanez CF, Growth differentiation factor 11 signals through the transforming growth factor-beta receptor ALK5 to regionalize the anterior-posterior axis. EMBO Rep. 2006 Aug;7(8):831-7
1*	J:20959 Ang SL, Conlon RA, Jin O, Rossant J, Positive and negative signals from mesoderm regulate the expression of mouse Otx2 in ectoderm explants. Development. 1994 Oct;120(10):2979-89
1*	J:30828 Ang SL, Jin O, Rhinn M, Daigle N, Stevenson L, Rossant J, A targeted mouse Otx2 mutation leads to severe defects in gastrulation and formation of axial mesoderm and to deletion of rostral brain. Development. 1996 Jan;122(1):243-52
2*	J:19895 Ang SL, Rossant J, HNF-3 beta is essential for node and notochord formation in mouse development. Cell. 1994 Aug 26;78(4):561-74
1*	J:134435 Anselme I, Laclef C, Lanaud M, Ruther U, Schneider-Maunoury S, Defects in brain patterning and head morphogenesis in the mouse mutant Fused toes. Dev Biol. 2007 Apr 1;304(1):208-20
5	J:91364 Arenkiel BR, Tvrdik P, Gaufo GO, Capecchi MR, Hoxb1 functions in both motoneurons and in tissues of the periphery to establish and maintain the proper neuronal circuitry. Genes Dev. 2004 Jul 1;18(13):1539-52
1	J:290418 Ashokkumar D, Zhang Q, Much C, Bledau AS, Naumann R, Alexopoulou D, Dahl A, Goveas N, Fu J, Anastassiadis K, Stewart AF, Kranz A, MLL4 is required after implantation, whereas MLL3 becomes essential during late gestation. Development. 2020 Jun 17;147(12):dev186999
1	J:172564 Bami M, Episkopou V, Gavalas A, Gouti M, Directed neural differentiation of mouse embryonic stem cells is a sensitive system for the identification of novel hox gene effectors. PLoS One. 2011;6(5):e20197
2*	J:60095 Barrow JR, Stadler HS, Capecchi MR, Roles of Hoxa1 and Hoxa2 in patterning the early hindbrain of the mouse. Development. 2000 Mar;127(5):933-44
1*	J:19646 Becker N, Seitanidou T, Murphy P, Mattei MG, Topilko P, Nieto MA, Wilkinson DG, Charnay P, Gilardi-Hebenstreit P, Several receptor tyrosine kinase genes of the Eph family are segmentally expressed in the developing hindbrain. Mech Dev. 1994 Jul;47(1):3-17
1*	J:50401 Bel S, Core N, Djabali M, Kieboom K, Van der Lugt N, Alkema MJ , Van Lohuizen M, Genetic interactions and dosage effects of Polycomb group genes in mice. Development. 1998 Sep;125(18):3543-51
5*	J:173839 Bertrand N, Roux M, Ryckebusch L, Niederreither K, Dolle P, Moon A, Capecchi M, Zaffran S, Hox genes define distinct progenitor sub-domains within the second heart field. Dev Biol. 2011 May 15;353(2):266-74
1*	J:198636 Biechele S, Cockburn K, Lanner F, Cox BJ, Rossant J, Porcn-dependent Wnt signaling is not required prior to mouse gastrulation. Development. 2013 Jul;140(14):2961-71
2*	J:173623 Biechele S, Cox BJ, Rossant J, Porcupine homolog is required for canonical Wnt signaling and gastrulation in mouse embryos. Dev Biol. 2011 Jul 15;355(2):275-85
4*	J:35305 Bogue CW, Lou LJ, Vasavada H, Wilson CM, Jacobs HC, Expression of Hoxb genes in the developing mouse foregut and lung. Am J Respir Cell Mol Biol. 1996 Aug;15(2):163-71
2	J:126342 Bok J, Brunet LJ, Howard O, Burton Q, Wu DK, Role of hindbrain in inner ear morphogenesis: Analysis of Noggin knockout mice. Dev Biol. 2007 Nov 1;311(1):69-78
1	J:169004 Bok J, Raft S, Kong KA, Koo SK, Drager UC, Wu DK, Transient retinoic acid signaling confers anterior-posterior polarity to the inner ear. Proc Natl Acad Sci U S A. 2011 Jan 4;108(1):161-6
2*	J:85710 Bush JO, Maltby KM, Cho ES, Jiang R, The T-box gene Tbx10 exhibits a uniquely restricted expression pattern during mouse embryogenesis. Gene Expr Patterns. 2003 Aug;3(4):533-8
2	J:110605 Camus A, Perea-Gomez A, Moreau A, Collignon J, Absence of Nodal signaling promotes precocious neural differentiation in the mouse embryo. Dev Biol. 2006 Jul 15;295(2):743-55
1*	J:14356 Carpenter EM, Goddard JM, Chisaka O, Manley NR, Capecchi MR, Loss of Hox-A1 (Hox-1.6) function results in the reorganization of the murine hindbrain. Development. 1993 Aug;118(4):1063-75
7	J:98490 Chambeyron S, Da Silva NR, Lawson KA, Bickmore WA, Nuclear re-organisation of the Hoxb complex during mouse embryonic development. Development. 2005 May;132(9):2215-2223
1*	J:177278 Chang SL, Yan YT, Shi YL, Liu YC, Takahashi H, Liu FC, Region- and cell type-selective expression of the evolutionarily conserved Nolz-1/zfp503 gene in the developing mouse hindbrain. Gene Expr Patterns. 2011 Dec;11(8):525-32
2	J:139339 Chawengsaksophak K, de Graaff W, Rossant J, Deschamps J, Beck F, Cdx2 is essential for axial elongation in mouse development. Proc Natl Acad Sci U S A. 2004 May 18;101(20):7641-5
2*	J:329266 Chen CH, Behringer RR, Transgenic human HOXB1-9 directs anterior-posterior axial skeleton pattern in Hoxb1-9 deficient mice. Differentiation. 2022 Sep-Oct;127:1-11
2	J:224198 Chen Y, Takano-Maruyama M, Fritzsch B, Gaufo GO, Hoxb1 controls anteroposterior identity of vestibular projection neurons. PLoS One. 2012;7(4):e34762
4*	J:119560 Choi MY, Romer AI, Hu M, Lepourcelet M, Mechoor A, Yesilaltay A, Krieger M, Gray PA, Shivdasani RA, A dynamic expression survey identifies transcription factors relevant in mouse digestive tract development. Development. 2006 Oct;133(20):4119-29
2*	J:168654 Chung YC, Tsai YJ, Shiu TY, Sun YY, Wang PF, Chen CL, Screening large numbers of expression patterns of transcription factors in late stages of the mouse thymus. Gene Expr Patterns. 2011 Jan-Feb;11(1-2):84-92
3*	J:22020 Cordes SP, Barsh GS, The mouse segmentation gene kr encodes a novel basic domain-leucine zipper transcription factor. Cell. 1994 Dec 16;79(6):1025-34
1	J:124187 Correia AC, Costa M, Moraes F, Bom J, Novoa A, Mallo M, Bmp2 is required for migration but not for induction of neural crest cells in the mouse. Dev Dyn. 2007 Sep;236(9):2493-501
2	J:283391 de Soysa TY, Ranade SS, Okawa S, Ravichandran S, Huang Y, Salunga HT, Schricker A, Del Sol A, Gifford CA, Srivastava D, Single-cell analysis of cardiogenesis reveals basis for organ-level developmental defects. Nature. 2019 Aug;572(7767):120-124
1	J:70480 del Toro ED, Borday V, Davenne M, Neun R, Rijli FM, Champagnat J, Generation of a novel functional neuronal circuit in Hoxa1 mutant mice. J Neurosci. 2001 Aug 1;21(15):5637-42
6*	J:14757 Detmer K, Lawrence HJ, Largman C, Expression of class I homeobox genes in fetal and adult murine skin. J Invest Dermatol. 1993 Oct;101(4):517-22
1*	J:340779 Di Bonito M, Bourien J, Tizzano M, Harrus AG, Puel JL, Avallone B, Nouvian R, Studer M, Abnormal outer hair cell efferent innervation in Hoxb1-dependent sensorineural hearing loss. PLoS Genet. 2023 Sep;19(9):e1010933
6	J:197162 Di Bonito M, Narita Y, Avallone B, Sequino L, Mancuso M, Andolfi G, Franze AM, Puelles L, Rijli FM, Studer M, Assembly of the auditory circuitry by a Hox genetic network in the mouse brainstem. PLoS Genet. 2013;9(2):e1003249
2	J:50343 Ding J, Yang L, Yan YT, Chen A, Desai N, Wynshaw-Boris A, Shen MM, Cripto is required for correct orientation of the anterior-posterior axis in the mouse embryo [see comments]. Nature. 1998 Oct 15;395(6703):702-7
2*	J:14491 Dolle P, Lufkin T, Krumlauf R, Mark M, Duboule D, Chambon P, Local alterations of Krox-20 and Hox gene expression in the hindbrain suggest lack of rhombomeres 4 and 5 in homozygote null Hoxa-1 (Hox-1.6) mutant embryos. Proc Natl Acad Sci U S A. 1993 Aug 15;90(16):7666-70
1	J:49657 Dufort D, Schwartz L, Harpal K, Rossant J, The transcription factor HNF3beta is required in visceral endoderm for normal primitive streak morphogenesis. Development. 1998 Aug;125(16):3015-25
2*	J:38388 Dupe V, Davenne M, Brocard J, Dolle P, Mark M, Dierich A, Chambon P, Rijli FM, In vivo functional analysis of the Hoxa-1 3' retinoic acid response element (3'RARE). Development. 1997 Jan;124(2):399-410
1*	J:41551 Dupe V, Ghyselinck NB, Wendling O, Chambon P, Mark M, Key roles of retinoic acid receptors alpha and beta in the patterning of the caudal hindbrain, pharyngeal arches and otocyst in the mouse. Development. 1999 Nov;126(22):5051-9
1*	J:308709 Duran Alonso MB, Vendrell V, Lopez-Hernandez I, Alonso MT, Martin DM, Giraldez F, Carramolino L, Giovinazzo G, Vazquez E, Torres M, Schimmang T, Meis2 Is Required for Inner Ear Formation and Proper Morphogenesis of the Cochlea. Front Cell Dev Biol. 2021;9:679325
4	J:142039 Egea J, Erlacher C, Montanez E, Burtscher I, Yamagishi S, Hess M, Hampel F, Sanchez R, Rodriguez-Manzaneque MT, Bosl MR, Fassler R, Lickert H, Klein R, Genetic ablation of FLRT3 reveals a novel morphogenetic function for the anterior visceral endoderm in suppressing mesoderm differentiation. Genes Dev. 2008 Dec 1;22(23):3349-3362
1	J:178316 Ferretti E, Li B, Zewdu R, Wells V, Hebert JM, Karner C, Anderson MJ, Williams T, Dixon J, Dixon MJ, Depew MJ, Selleri L, A conserved Pbx-Wnt-p63-Irf6 regulatory module controls face morphogenesis by promoting epithelial apoptosis. Dev Cell. 2011 Oct 18;21(4):627-41
1*	J:56023 Ferretti E, Schulz H, Talarico D, Blasi F, Berthelsen J, The PBX-regulating protein PREP1 is present in different PBX-complexed forms in mouse. Mech Dev. 1999 May;83(1-2):53-64
1*	J:41809 Filosa S, RiveraPerez JA, Gomez AP, Gansmuller A, Sasaki H, Behringer RR, Ang SL, goosecoid and HNF-3 beta genetically interact to regulate neural tube patterning during mouse embryogenesis. Development. 1997 JUL;124(14):2843-2854
3*	J:84603 Forlani S, Lawson KA, Deschamps J, Acquisition of Hox codes during gastrulation and axial elongation in the mouse embryo. Development. 2003 Aug;130(16):3807-19
10*	J:73 Frohman MA, Boyle M, Martin GR, Isolation of the mouse Hox-2.9 gene; analysis of embryonic expression suggests that positional information along the anterior-posterior axis is specified by mesoderm. Development. 1990 Oct;110(2):589-607
1*	J:2048 Frohman MA, Martin GR, Isolation and analysis of embryonic expression of Hox-4.9, a member of the murine labial-like gene family. Mech Dev. 1992 Jul;38(1):55-67
1*	J:4596 Frohman MA, Martin GR, Cordes SP, Halamek LP, Barsh GS, Altered rhombomere-specific gene expression and hyoid bone differentiation in the mouse segmentation mutant, kreisler (kr). Development. 1993 Mar;117(3):925-36
2*	J:65601 Garel S, Garcia-Dominguez M, Charnay P, Control of the migratory pathway of facial branchiomotor neurones. Development. 2000 Dec;127(24):5297-307
1*	J:29972 Gassmann M, Casagranda F, Orioli D, Simon H, Lai C, Klein R, Lemke G, Aberrant neural and cardiac development in mice lacking the ErbB4 neuregulin receptor [see comments]. Nature. 1995 Nov 23;378(6555):390-4
7*	J:65599 Gaufo GO, Flodby P, Capecchi MR, Hoxb1 controls effectors of sonic hedgehog and mash1 signaling pathways. Development. 2000 Dec;127(24):5343-54
5	J:86041 Gaufo GO, Thomas KR, Capecchi MR, Hox3 genes coordinate mechanisms of genetic suppression and activation in the generation of branchial and somatic motoneurons. Development. 2003 Nov;130(21):5191-201
2*	J:43763 Gavalas A, Davenne M, Lumsden A, Chambon P, Rijli FM, Role of Hoxa-2 in axon pathfinding and rostral hindbrain patterning. Development. 1997 Oct;124(19):3693-702
6*	J:86049 Gavalas A, Ruhrberg C, Livet J, Henderson CE, Krumlauf R, Neuronal defects in the hindbrain of Hoxa1, Hoxb1 and Hoxb2 mutants reflect regulatory interactions among these Hox genes. Development. 2003 Dec;130(23):5663-79
1*	J:16389 Gendron-Maguire M, Mallo M, Zhang M, Gridley T, Hoxa-2 mutant mice exhibit homeotic transformation of skeletal elements derived from cranial neural crest. Cell. 1993 Dec 31;75(7):1317-31
1	J:106548 Georgiades P, Rossant J, Ets2 is necessary in trophoblast for normal embryonic anteroposterior axis development. Development. 2006 Mar;133(6):1059-68
4	J:107403 Glaser S, Schaft J, Lubitz S, Vintersten K, van der Hoeven F, Tufteland KR, Aasland R, Anastassiadis K, Ang SL, Stewart AF, Multiple epigenetic maintenance factors implicated by the loss of Mll2 in mouse development. Development. 2006 Apr;133(8):1423-32
3	J:36235 Goddard JM, Rossel M, Manley NR, Capecchi MR, Mice with targeted disruption of Hoxb-1 fail to form the motor nucleus of the VIIth nerve. Development. 1996 Oct;122(10):3217-28
2*	J:44409 Gofflot F, Hall M, Morriss-Kay GM, Genetic patterning of the developing mouse tail at the time of posterior neuropore closure. Dev Dyn. 1997 Dec;210(4):431-45
2	J:51455 Gofflot F, Hall M, Morriss-Kay GM, Genetic patterning of the posterior neuropore region of curly tail mouse embryos: deficiency of Wnt5a expression. Int J Dev Biol. 1998 Jul;42(5):637-44
1*	J:44237 Goh KL, Yang JT, Hynes RO, Mesodermal defects and cranial neural crest apoptosis in alpha5 integrin-null embryos. Development. 1997 Nov;124(21):4309-19
1	J:42441 Goodrich LV, Milenkovic L, Higgins KM, Scott MP, Altered neural cell fates and medulloblastoma in mouse patched mutants. Science. 1997 Aug 22;277(5329):1109-13
3*	J:91257 Gray PA, Fu H, Luo P, Zhao Q, Yu J, Ferrari A, Tenzen T, Yuk DI, Tsung EF, Cai Z, Alberta JA, Cheng LP, Liu Y, Stenman JM, Valerius MT, Billings N, Kim HA, Greenberg ME, McMahon AP, Rowitch DH, Stiles CD, Ma Q, Mouse Brain Organization Revealed Through Direct Genome-Scale TF Expression Analysis. Science. 2004 Dec 24;306(5705):2255-2257
5*	J:149067 Grier DG, Thompson A, Lappin TR, Halliday HL, Quantification of Hox and Surfactant Protein-B Transcription during Murine Lung Development. Neonatology. 2009 Feb 10;96(1):50-60
1*	J:171409 GUDMAP Consortium, GUDMAP: the GenitoUrinary Development Molecular Anatomy Project. www.gudmap.org. 2004;
1	J:135128 Guo Q, Li JY, Distinct functions of the major Fgf8 spliceform, Fgf8b, before and during mouse gastrulation. Development. 2007 Jun;134(12):2251-60
1	J:105259 Guris DL, Duester G, Papaioannou VE, Imamoto A, Dose-dependent interaction of Tbx1 and Crkl and locally aberrant RA signaling in a model of del22q11 syndrome. Dev Cell. 2006 Jan;10(1):81-92
2*	J:278751 Hatakeyama J, Sakamoto S, Kageyama R, Hes1 and Hes5 regulate the development of the cranial and spinal nerve systems. Dev Neurosci. 2006;28(1-2):92-101
2*	J:50514 Helmbacher F, Pujades C, Desmarquet C, Frain M, Rijli FM, Chambon P, Charnay P, Hoxa1 and Krox-20 synergize to control the development of rhombomere 3. Development. 1998 Dec;125(23):4739-48
2	J:308865 Higashijima Y, Nagai N, Yamamoto M, Kitazawa T, Kawamura YK, Taguchi A, Nakada N, Nangaku M, Furukawa T, Aburatani H, Kurihara H, Wada Y, Kanki Y, Lysine demethylase 7a regulates murine anterior-posterior development by modulating the transcription of Hox gene cluster. Commun Biol. 2020 Nov 30;3(1):725
1*	J:73652 Hitoshi S, Tropepe V, Ekker M, van der Kooy D, Neural stem cell lineages are regionally specified, but not committed, within distinct compartments of the developing brain. Development. 2002 Jan;129(1):233-44
1*	J:139177 Hoffman BG, Zavaglia B, Witzsche J, Ruiz de Algara T, Beach M, Hoodless PA, Jones SJ, Marra MA, Helgason CD, Identification of transcripts with enriched expression in the developing and adult pancreas. Genome Biol. 2008;9(6):R99
3	J:266434 Hong SH, Fang S, Lu BC, Nofsinger R, Kawakami Y, Castro GL, Yin Y, Lin C, Yu RT, Downes M, Izpisua Belmonte JC, Shilatifard A, Evans RM, Corepressor SMRT is required to maintain Hox transcriptional memory during somitogenesis. Proc Natl Acad Sci U S A. 2018 Oct 9;115(41):10381-10386
2*	J:49649 Huang D, Chen SW, Langston AW, Gudas LJ, A conserved retinoic acid responsive element in the murine Hoxb-1 gene is required for expression in the developing gut. Development. 1998 Aug;125(16):3235-46
1	J:621 Hunt P, Gulisano M, Cook M, Sham MH, Faiella A, Wilkinson D, Boncinelli E, Krumlauf R, A distinct Hox code for the branchial region of the vertebrate head. Nature. 1991 Oct 31;353(6347):861-4
1*	J:33651 Hunt P, Whiting J, Nonchev S, Sham MH, Marshall H, Graham A, Cook M, Allemann R, Rigby PW, Gulisano M, Faiella A, Boncinelli E, Krumlauf R, The branchial Hox code and its implications for gene regulation, patterning of the nervous system and head evolution. Development. 1991;Suppl 2:63-77
1*	J:32032 Hunt P, Wilkinson D, Krumlauf R, Patterning the vertebrate head: murine Hox 2 genes mark distinct subpopulations of premigratory and migrating cranial neural crest. Development. 1991 May;112(1):43-50
1	J:80667 Iratni R, Yan YT, Chen C, Ding J, Zhang Y, Price SM, Reinberg D, Shen MM, Inhibition of excess nodal signaling during mouse gastrulation by the transcriptional corepressor DRAP1. Science. 2002 Dec 6;298(5600):1996-9
1	J:102844 Ishii M, Han J, Yen HY, Sucov HM, Chai Y, Maxson RE Jr, Combined deficiencies of Msx1 and Msx2 cause impaired patterning and survival of the cranial neural crest. Development. 2005 Nov;132(22):4937-50
1*	J:81402 Ishikawa TO, Tamai Y, Li Q, Oshima M, Taketo MM, Requirement for tumor suppressor Apc in the morphogenesis of anterior and ventral mouse embryo. Dev Biol. 2003 Jan 15;253(2):230-46
1*	J:106931 Isono K, Nemoto K, Li Y, Takada Y, Suzuki R, Katsuki M, Nakagawara A, Koseki H, Overlapping roles for homeodomain-interacting protein kinases hipk1 and hipk2 in the mediation of cell growth in response to morphogenetic and genotoxic signals. Mol Cell Biol. 2006 Apr;26(7):2758-71
1	J:128441 Jacob J, Ferri AL, Milton C, Prin F, Pla P, Lin W, Gavalas A, Ang SL, Briscoe J, Transcriptional repression coordinates the temporal switch from motor to serotonergic neurogenesis. Nat Neurosci. 2007 Nov;10(11):1433-9
1	J:137096 Jayasena CS, Ohyama T, Segil N, Groves AK, Notch signaling augments the canonical Wnt pathway to specify the size of the otic placode. Development. 2008 Jul;135(13):2251-61
1*	J:80934 Jiang X, Choudhary B, Merki E, Chien KR, Maxson RE, Sucov HM, Normal fate and altered function of the cardiac neural crest cell lineage in retinoic acid receptor mutant embryos. Mech Dev. 2002 Sep;117(1-2):115-22
1	J:299860 Jin L, Chen Y, Crossman DK, Datta A, Vu T, Mobley JA, Basu MK, Scarduzio M, Wang H, Chang C, Datta PK, STRAP regulates alternative splicing fidelity during lineage commitment of mouse embryonic stem cells. Nat Commun. 2020 Nov 23;11(1):5941
1	J:104870 Jin O, Harpal K, Ang SL, Rossant J, Otx2 and HNF3beta genetically interact in anterior patterning. Int J Dev Biol. 2001;45(1):357-65
2	J:213451 Karpinski BA, Maynard TM, Fralish MS, Nuwayhid S, Zohn IE, Moody SA, LaMantia AS, Dysphagia and disrupted cranial nerve development in a mouse model of DiGeorge (22q11) deletion syndrome. Dis Model Mech. 2014 Feb;7(2):245-57
1	J:311850 Kayam G, Kohl A, Magen Z, Peretz Y, Weisinger K, Bar A, Novikov O, Brodski C, Sela-Donenfeld D, A novel role for Pax6 in the segmental organization of the hindbrain. Development. 2013 May;140(10):2190-202
3*	J:105069 Kim FA, Sing l A, Kaneko T, Bieman M, Stallwood N, Sadl VS, Cordes SP, The vHNF1 homeodomain protein establishes early rhombomere identity by direct regulation of Kreisler expression. Mech Dev. 2005 Dec;122(12):1300-9
2*	J:70278 Kimura C, Shen MM, Takeda N, Aizawa S, Matsuo I, Complementary functions of Otx2 and Cripto in initial patterning of mouse epiblast. Dev Biol. 2001 Jul 1;235(1):12-32
3	J:59069 Klingensmith J, Ang SL, Bachiller D, Rossant J, Neural induction and patterning in the mouse in the absence of the node and its derivatives. Dev Biol. 1999 Dec 15;216(2):535-49
2*	J:210984 Kumar A, Lualdi M, Loncarek J, Cho YW, Lee JE, Ge K, Kuehn MR, Loss of function of mouse Pax-Interacting Protein 1-associated glutamate rich protein 1a (Pagr1a) leads to reduced Bmp2 expression and defects in chorion and amnion development. Dev Dyn. 2014 Jul;243(7):937-47
1*	J:88448 Kusumi K, Dunwoodie SL, Krumlauf R, Dynamic expression patterns of the pudgy/spondylocostal dysostosis gene Dll3 in the developing nervous system. Mech Dev. 2001 Jan;100(1):141-4
1*	J:50697 Labosky PA, Kaestner KH, The winged helix transcription factor Hfh2 is expressed in neural crest and spinal cord during mouse development. Mech Dev. 1998 Aug;76(1-2):185-90
2	J:96329 Ladher RK, Wright TJ, Moon AM, Mansour SL, Schoenwolf GC, FGF8 initiates inner ear induction in chick and mouse. Genes Dev. 2005 Mar 1;19(5):603-13
1	J:236825 Langer D, Martianov I, Alpern D, Rhinn M, Keime C, Dolle P, Mengus G, Davidson I, Essential role of the TFIID subunit TAF4 in murine embryogenesis and embryonic stem cell differentiation. Nat Commun. 2016 Mar 30;7:11063
2*	J:119875 Lebel M, Mo R, Shimamura K, Hui CC, Gli2 and Gli3 play distinct roles in the dorsoventral patterning of the mouse hindbrain. Dev Biol. 2007 Feb 1;302(1):345-55
1*	J:73067 Li JY, Joyner AL, Otx2 and Gbx2 are required for refinement and not induction of mid-hindbrain gene expression. Development. 2001 Dec;128(24):4979-91
2	J:98385 Li JY, Lao Z, Joyner AL, New regulatory interactions and cellular responses in the isthmic organizer region revealed by altering Gbx2 expression. Development. 2005 Apr;132(8):1971-81
1	J:159110 Li P, Pashmforoush M, Sucov HM, Retinoic acid regulates differentiation of the secondary heart field and TGFbeta-mediated outflow tract septation. Dev Cell. 2010 Mar 16;18(3):480-5
1	J:228600 Li Q, Wang HY, Chepelev I, Zhu Q, Wei G, Zhao K, Wang RF, Stage-dependent and locus-specific role of histone demethylase Jumonji D3 (JMJD3) in the embryonic stages of lung development. PLoS Genet. 2014 Jul;10(7):e1004524
1	J:308052 Liang F, Wang B, Geng J, You G, Fa J, Zhang M, Sun H, Chen H, Fu Q, Zhang X, Zhang Z, SORBS2 is a genetic factor contributing to cardiac malformation of 4q deletion syndrome patients. Elife. 2021 Jun 8;10:e67481
1*	J:98484 Lickert H, Cox B, Wehrle C, Taketo MM, Kemler R, Rossant J, Dissecting Wnt/{beta}-catenin signaling during gastrulation using RNA interference in mouse embryos. Development. 2005 Jun;132(11):2599-609
2	J:332317 Lin X, Swedlund B, Ton MN, Ghazanfar S, Guibentif C, Paulissen C, Baudelet E, Plaindoux E, Achouri Y, Calonne E, Dubois C, Mansfield W, Zaffran S, Marioni JC, Fuks F, Gottgens B, Lescroart F, Blanpain C, Mesp1 controls the chromatin and enhancer landscapes essential for spatiotemporal patterning of early cardiovascular progenitors. Nat Cell Biol. 2022 Jul;24(7):1114-1128
1*	J:291732 Lin Y, Yu J, Wu J, Wang S, Zhang T, Abnormal level of CUL4B-mediated histone H2A ubiquitination causes disruptive HOX gene expression. Epigenetics Chromatin. 2019 Apr 16;12(1):22
1	J:98487 Lin Z, Cantos R, Patente M, Wu DK, Gbx2 is required for the morphogenesis of the mouse inner ear: a downstream candidate of hindbrain signaling. Development. 2005 May;132(10):2309-18
1	J:56511 Liu P, Wakamiya M, Shea MJ, Albrecht U, Behringer RR, Bradley A, Requirement for Wnt3 in vertebrate axis formation. Nat Genet. 1999 Aug;22(4):361-5
2*	J:29061 Luo J, Pasceri P, Conlon RA, Rossant J, Giguere V, Mice lacking all isoforms of retinoic acid receptor beta develop normally and are susceptible to the teratogenic effects of retinoic acid. Mech Dev. 1995 Sep;53(1):61-71
1	J:92081 Ma X, Kawamoto S, Hara Y, Adelstein RS, A point mutation in the motor domain of nonmuscle myosin II-B impairs migration of distinct groups of neurons. Mol Biol Cell. 2004 Jun;15(6):2568-79
2*	J:146220 Maclean G, Dolle P, Petkovich M, Genetic disruption of CYP26B1 severely affects development of neural crest derived head structures, but does not compromise hindbrain patterning. Dev Dyn. 2009 Mar;238(3):732-45
1*	J:173123 Mahoney Rogers AA, Zhang J, Shim K, Sprouty1 and Sprouty2 limit both the size of the otic placode and hindbrain Wnt8a by antagonizing FGF signaling. Dev Biol. 2011 May 1;353(1):94-104
1	J:160496 Makki N, Capecchi MR, Hoxa1 lineage tracing indicates a direct role for Hoxa1 in the development of the inner ear, the heart, and the third rhombomere. Dev Biol. 2010 May 15;341(2):499-509
1	J:175781 Makki N, Capecchi MR, Identification of novel Hoxa1 downstream targets regulating hindbrain, neural crest and inner ear development. Dev Biol. 2011 Sep 15;357(2):295-304
1*	J:43265 Mallo M, Brandlin I, Segmental identity can change independently in the hindbrain and rhombencephalic neural crest. Dev Dyn. 1997 Oct;210(2):146-56
1	J:311992 Mandalos N, Rhinn M, Granchi Z, Karampelas I, Mitsiadis T, Economides AN, Dolle P, Remboutsika E, Sox2 acts as a rheostat of epithelial to mesenchymal transition during neural crest development. Front Physiol. 2014;5:345
1*	J:26753 Manley NR, Capecchi MR, The role of Hoxa-3 in mouse thymus and thyroid development. Development. 1995 Jul;121(7):1989-2003
2	J:56427 Manzanares M, Trainor PA, Nonchev S, Ariza-McNaughton L, Brodie J, Gould A, Marshall H, Morrison A, Kwan CT, Sham MH, Wilkinson DG, Krumlauf R, The role of kreisler in segmentation during hindbrain development. Dev Biol. 1999 Jul 15;211(2):220-37
1*	J:72725 Martinez-Barbera JP, Signore M, Boyl PP, Puelles E, Acampora D, Gogoi R, Schubert F, Lumsden A, Simeone A, Regionalisation of anterior neuroectoderm and its competence in responding to forebrain and midbrain inducing activities depend on mutual antagonism between OTX2 and GBX2. Development. 2001 Dec;128(23):4789-800
1*	J:97458 Matt N, Schmidt CK, Dupe V, Dennefeld C, Nau H, Chambon P, Mark M, Ghyselinck NB, Contribution of cellular retinol-binding protein type 1 to retinol metabolism during mouse development. Dev Dyn. 2005 May;233(1):167-76
1*	J:338696 Maynard TM, Horvath A, Bernot JP, Karpinski BA, Tavares ALP, Shah A, Zheng Q, Spurr L, Olender J, Moody SA, Fraser CM, LaMantia AS, Lee NH, Transcriptional dysregulation in developing trigeminal sensory neurons in the LgDel mouse model of DiGeorge 22q11.2 deletion syndrome. Hum Mol Genet. 2020 Apr 15;29(6):1002-1017
2	J:42706 McGrath KE, Palis J, Expression of homeobox genes, including an insulin promoting factor, in the murine yolk sac at the time of hematopoietic initiation. Mol Reprod Dev. 1997 Oct;48(2):145-53
2*	J:19631 McKay IJ, Muchamore I, Krumlauf R, Maden M, Lumsden A, Lewis J, The kreisler mouse: a hindbrain segmentation mutant that lacks two rhombomeres. Development. 1994 Aug;120(8):2199-211
1	J:155154 Mesbah K, Harrelson Z, Theveniau-Ruissy M, Papaioannou VE, Kelly RG, Tbx3 is required for outflow tract development. Circ Res. 2008 Sep 26;103(7):743-50
1	J:201154 Meziane H, Fraulob V, Riet F, Krezel W, Selloum M, Geffarth M, Acampora D, Herault Y, Simeone A, Brand M, Dolle P, Rhinn M, The homeodomain factor Gbx1 is required for locomotion and cell specification in the dorsal spinal cord. PeerJ. 2013;1:e142
6*	J:130526 Mitiku N, Baker JC, Genomic analysis of gastrulation and organogenesis in the mouse. Dev Cell. 2007 Dec;13(6):897-907
1*	J:104611 Moore-Scott BA, Manley NR, Differential expression of Sonic hedgehog along the anterior-posterior axis regulates patterning of pharyngeal pouch endoderm and pharyngeal endoderm-derived organs. Dev Biol. 2005 Feb 15;278(2):323-35
1	J:271381 Motamedi FJ, Badro DA, Clarkson M, Lecca MR, Bradford ST, Buske FA, Saar K, Hubner N, Brandli AW, Schedl A, WT1 controls antagonistic FGF and BMP-pSMAD pathways in early renal progenitors. Nat Commun. 2014 Jul 17;5:4444
2	J:86051 Muller M, Jabs N, Lork DE, Fritzsch B, Sander M, Nkx6.1 controls migration and axon pathfinding of cranial branchio-motoneurons. Development. 2003 Dec;130(23):5815-26
10*	J:32084 Murphy P, Hill RE, Expression of the mouse labial-like homeobox-containing genes, Hox 2.9 and Hox 1.6, during segmentation of the hindbrain. Development. 1991 Jan;111(1):61-74
1*	J:55705 Nardelli J, Thiesson D, Fujiwara Y, Tsai FY, Orkin SH, Expression and genetic interaction of transcription factors GATA-2 and GATA-3 during development of the mouse central nervous system. Dev Biol. 1999 Jun 15;210(2):305-21
1	J:247259 Naruse C, Shibata S, Tamura M, Kawaguchi T, Abe K, Sugihara K, Kato T, Nishiuchi T, Wakana S, Ikawa M, Asano M, New insights into the role of Jmjd3 and Utx in axial skeletal formation in mice. FASEB J. 2017 Jun;31(6):2252-2266
2	J:65651 Neidhardt L, Gasca S, Wertz K, Obermayr F, Worpenberg S, Lehrach H, Herrmann BG, Large-scale screen for genes controlling mammalian embryogenesis, using high-throughput gene expression analysis in mouse embryos. Mech Dev. 2000 Nov;98(1-2):77-94
2*	J:76210 Niederreither K, Abu-Abed S, Schuhbaur B, Petkovich M, Chambon P, Dolle P, Genetic evidence that oxidative derivatives of retinoic acid are not involved in retinoid signaling during mouse development. Nat Genet. 2002 May;31(1):84-8
1	J:82804 Niederreither K, Vermot J, Le Roux I, Schuhbaur B, Chambon P, Dolle P, The regional pattern of retinoic acid synthesis by RALDH2 is essential for the development of posterior pharyngeal arches and the enteric nervous system. Development. 2003 Jun;130(11):2525-34
1*	J:53473 Niederreither K, Vermot J, Schuhbaur B, Chambon P, Dolle P, Retinoic acid synthesis and hindbrain patterning in the mouse embryo. Development. 2000 Jan;127(1):75-85
1	J:283357 Nowotschin S, Setty M, Kuo YY, Liu V, Garg V, Sharma R, Simon CS, Saiz N, Gardner R, Boutet SC, Church DM, Hoodless PA, Hadjantonakis AK, Pe'er D, The emergent landscape of the mouse gut endoderm at single-cell resolution. Nature. 2019 May;569(7756):361-367
1*	J:105983 Ohyama T, Mohamed OA, Taketo MM, Dufort D, Groves AK, Wnt signals mediate a fate decision between otic placode and epidermis. Development. 2006 Mar;133(5):865-75
1*	J:308135 Okubo T, Hara K, Azuma S, Takada S, Effect of retinoic acid signaling on Ripply3 expression and pharyngeal arch morphogenesis in mouse embryos. Dev Dyn. 2021 Jul;250(7):1036-1050
1	J:71547 Pasqualetti M, Neun R, Davenne M, Rijli FM, Retinoic acid rescues inner ear defects in Hoxa1 deficient mice. Nat Genet. 2001 Sep;29(1):34-9
3	J:44550 Pata I, Studer M, van Doorninck JH, Briscoe J, Kuuse S, Engel JD, Grosveld F, Karis A, The transcription factor GATA3 is a downstream effector of Hoxb1 specification in rhombomere 4. Development. 1999 Dec;126(23):5523-31
4*	J:89197 Patterson LT, Potter SS, Atlas of Hox gene expression in the developing kidney. Dev Dyn. 2004 Apr;229(4):771-9
4	J:82563 Pattyn A, Vallstedt A, Dias JM, Samad OA, Krumlauf R, Rijli FM, Brunet JF, Ericson J, Coordinated temporal and spatial control of motor neuron and serotonergic neuron generation from a common pool of CNS progenitors. Genes Dev. 2003 Mar 15;17(6):729-37
1	J:18886 Pellerin I, Schnabel C, Catron KM, Abate C, Hox proteins have different affinities for a consensus DNA site that correlate with the positions of their genes on the hox cluster. Mol Cell Biol. 1994 Jul;14(7):4532-45
1	J:81339 Perea-Gomez A, Vella FD, Shawlot W, Oulad-Abdelghani M, Chazaud C, Meno C, Pfister V, Chen L, Robertson E, Hamada H, Behringer RR, Ang SL, Nodal antagonists in the anterior visceral endoderm prevent the formation of multiple primitive streaks. Dev Cell. 2002 Nov;3(5):745-56
2	J:49857 Peters H, Neubuser A, Kratochwil K, Balling R, Pax9-deficient mice lack pharyngeal pouch derivatives and teeth and exhibit craniofacial and limb abnormalities. Genes Dev. 1998 Sep 1;12(17):2735-47
1	J:337811 Petrelli B, Ozturk A, Pind M, Ayele H, Fainsod A, Hicks GG, Genetically programmed retinoic acid deficiency during gastrulation phenocopies most known developmental defects due to acute prenatal alcohol exposure in FASD. Front Cell Dev Biol. 2023;11:1208279
1	J:42259 Qiu Y, Pereira FA, DeMayo FJ, Lydon JP, Tsai SY, Tsai MJ, Null mutation of mCOUP-TFI results in defects in morphogenesis of the glossopharyngeal ganglion, axonal projection, and arborization. Genes Dev. 1997 Aug 1;11(15):1925-37
2	J:162560 Qu Y, Glasco DM, Zhou L, Sawant A, Ravni A, Fritzsch B, Damrau C, Murdoch JN, Evans S, Pfaff SL, Formstone C, Goffinet AM, Chandrasekhar A, Tissir F, Atypical cadherins Celsr1-3 differentially regulate migration of facial branchiomotor neurons in mice. J Neurosci. 2010 Jul 14;30(28):9392-401
3	J:331697 Ramachandran J, Zhou W, Bardenhagen AE, Nasr T, Yates ER, Zorn AM, Ji H, Vokes SA, Hedgehog regulation of epithelial cell state and morphogenesis in the larynx. Elife. 2022 Nov 18;11
2	J:246236 Rana MS, Theveniau-Ruissy M, De Bono C, Mesbah K, Francou A, Rammah M, Dominguez JN, Roux M, Laforest B, Anderson RH, Mohun T, Zaffran S, Christoffels VM, Kelly RG, Tbx1 coordinates addition of posterior second heart field progenitor cells to the arterial and venous poles of the heart. Circ Res. 2014 Oct 10;115(9):790-9
1*	J:76367 Rathjen J, Haines BP, Hudson KM, Nesci A, Dunn S, Rathjen PD, Directed differentiation of pluripotent cells to neural lineages: homogeneous formation and differentiation of a neurectoderm population. Development. 2002 Jun;129(11):2649-61
1	J:83923 Rayasam GV, Wendling O, Angrand PO, Mark M, Niederreither K, Song L, Lerouge T, Hager GL, Chambon P, Losson R, NSD1 is essential for early post-implantation development and has a catalytically active SET domain. EMBO J. 2003 Jun 16;22(12):3153-63
3	J:93020 Remacle S, Abbas L, De Backer O, Pacico N, Gavalas A, Gofflot F, Picard JJ, Rezsohazy R, Loss of function but no gain of function caused by amino acid substitutions in the hexapeptide of Hoxa1 in vivo. Mol Cell Biol. 2004 Oct;24(19):8567-75
1*	J:46641 Rhinn M, Dierich A, Shawlot W, Behringer RR, Le Meur M, Ang SL, Sequential roles for Otx2 in visceral endoderm and neuroectoderm for forebrain and midbrain induction and specification. Development. 1998 Mar;125(5):845-56
2*	J:88939 Rhinn M, Lun K, Werner M, Simeone A, Brand M, Isolation and expression of the homeobox gene Gbx1 during mouse development. Dev Dyn. 2004 Feb;229(2):334-9
2	J:177362 Rhinn M, Schuhbaur B, Niederreither K, Dolle P, Involvement of retinol dehydrogenase 10 in embryonic patterning and rescue of its loss of function by maternal retinaldehyde treatment. Proc Natl Acad Sci U S A. 2011 Oct 4;108(40):16687-92
1	J:118803 Ribes V, Otto DM, Dickmann L, Schmidt K, Schuhbaur B, Henderson C, Blomhoff R, Wolf CR, Tickle C, Dolle P, Rescue of cytochrome P450 oxidoreductase (Por) mouse mutants reveals functions in vasculogenesis, brain and limb patterning linked to retinoic acid homeostasis. Dev Biol. 2007 Mar 1;303(1):66-81
1*	J:16388 Rijli FM, Mark M, Lakkaraju S, Dierich A, Dolle P, Chambon P, A homeotic transformation is generated in the rostral branchial region of the head by disruption of Hoxa-2, which acts as a selector gene. Cell. 1993 Dec 31;75(7):1333-49
1	J:128002 Rizzoti K, Lovell-Badge R, SOX3 activity during pharyngeal segmentation is required for craniofacial morphogenesis. Development. 2007 Oct;134(19):3437-48
2*	J:41540 Rossel M, Capecchi MR, Mice mutant for both Hoxa1 and Hoxb1 show extensive remodeling of the hindbrain and defects in craniofacial development. Development. 1999 Nov;126(22):5027-40
2*	J:226322 Roux M, Laforest B, Capecchi M, Bertrand N, Zaffran S, Hoxb1 regulates proliferation and differentiation of second heart field progenitors in pharyngeal mesoderm and genetically interacts with Hoxa1 during cardiac outflow tract development. Dev Biol. 2015 Oct 15;406(2):247-58
5*	J:10556 Rubock MJ, Larin Z, Cook M, Papalopulu N, Krumlauf R, Lehrach H, A yeast artificial chromosome containing the mouse homeobox cluster Hox-2 [published erratum appears in Proc Natl Acad Sci U S A 1990 Sep;87(18):7346]. Proc Natl Acad Sci U S A. 1990 Jun;87(12):4751-5
2*	J:18681 Ruiz JC, Robertson EJ, The expression of the receptor-protein tyrosine kinase gene, eck, is highly restricted during early mouse development. Mech Dev. 1994 May;46(2):87-100
2	J:83304 Sadl VS, Sing A, Mar L, Jin F, Cordes SP, Analysis of hindbrain patterning defects caused by the kreislerenu mutation reveals multiple roles of Kreisler in hindbrain segmentation. Dev Dyn. 2003 May;227(1):134-42
1	J:166617 Sakurai Y, Kurokawa D, Kiyonari H, Kajikawa E, Suda Y, Aizawa S, Otx2 and Otx1 protect diencephalon and mesencephalon from caudalization into metencephalon during early brain regionalization. Dev Biol. 2010 Nov 15;347(2):392-403
1	J:290220 Sato T, Kataoka K, Ito Y, Yokoyama S, Inui M, Mori M, Takahashi S, Akita K, Takada S, Ueno-Kudoh H, Asahara H, Lin28a/let-7 pathway modulates the Hox code via Polycomb regulation during axial patterning in vertebrates. Elife. 2020 May 29;9:e53608
1	J:131426 Sawada A, Kiyonari H, Ukita K, Nishioka N, Imuta Y, Sasaki H, Redundant roles of Tead1 and Tead2 in notochord development and the regulation of cell proliferation and survival. Mol Cell Biol. 2008 May;28(10):3177-89
1*	J:39350 Schneider-Maunoury S, Seitanidou T, Charnay P, Lumsden A, Segmental and neuronal architecture of the hindbrain of Krox-20 mouse mutants. Development. 1997 Mar;124(6):1215-26
2*	J:16077 Schneider-Maunoury S, Topilko P, Seitandou T, Levi G, Cohen-Tannoudji M, Pournin S, Babinet C, Charnay P, Disruption of Krox-20 results in alteration of rhombomeres 3 and 5 in the developing hindbrain. Cell. 1993 Dec 17;75(6):1199-214
3*	J:42028 Seitanidou T, Schneider-Maunoury S, Desmarquet C, Wilkinson DG , Charnay P, Krox-20 is a key regulator of rhombomere-specific gene expression in the developing hindbrain. Mech Dev. 1997 Jul;65(1-2):31-42
2*	J:71996 Selleri L, Depew MJ, Jacobs Y, Chanda SK, Tsang KY, Cheah KS, Rubenstein JL, O'Gorman S, Cleary ML, Requirement for Pbx1 in skeletal patterning and programming chondrocyte proliferation and differentiation. Development. 2001 Sep;128(18):3543-57
1	J:155886 Seong IS, Woda JM, Song JJ, Lloret A, Abeyrathne PD, Woo CJ, Gregory G, Lee JM, Wheeler VC, Walz T, Kingston RE, Gusella JF, Conlon RA, MacDonald ME, Huntingtin facilitates polycomb repressive complex 2. Hum Mol Genet. 2010 Feb 15;19(4):573-83
4*	J:209112 Shimizu H, Kubo A, Uchibe K, Hashimoto M, Yokoyama S, Takada S, Mitsuoka K, Asahara H, The AERO system: a 3D-like approach for recording gene expression patterns in the whole mouse embryo. PLoS One. 2013;8(10):e75754
3	J:98515 Sirbu IO, Gresh L, Barra J, Duester G, Shifting boundaries of retinoic acid activity control hindbrain segmental gene expression. Development. 2005 Jun;132(11):2611-22
1	J:119655 Song MR, Shirasaki R, Cai CL, Ruiz EC, Evans SM, Lee SK, Pfaff SL, T-Box transcription factor Tbx20 regulates a genetic program for cranial motor neuron cell body migration. Development. 2006 Dec;133(24):4945-55
2*	J:77801 Soo K, O'Rourke MP, Khoo PL, Steiner KA, Wong N, Behringer RR, Tam PP, Twist function is required for the morphogenesis of the cephalic neural tube and the differentiation of the cranial neural crest cells in the mouse embryo. Dev Biol. 2002 Jul 15;247(2):251-70
1	J:239945 Souilhol C, Perea-Gomez A, Camus A, Beck-Cormier S, Vandormael-Pournin S, Escande M, Collignon J, Cohen-Tannoudji M, NOTCH activation interferes with cell fate specification in the gastrulating mouse embryo. Development. 2015 Nov 01;142(21):3649-60
4	J:302497 Stefanovic S, Laforest B, Desvignes JP, Lescroart F, Argiro L, Maurel-Zaffran C, Salgado D, Plaindoux E, De Bono C, Pazur K, Theveniau-Ruissy M, Beroud C, Puceat M, Gavalas A, Kelly RG, Zaffran S, Hox-dependent coordination of mouse cardiac progenitor cell patterning and differentiation. Elife. 2020 Aug 17;9:e55124
6*	J:46973 Studer M, Gavalas A, Marshall H, Ariza-McNaughton L, Rijli FM , Chambon P , Krumlauf R, Genetic interactions between Hoxa1 and Hoxb1 reveal new roles in regulation of early hindbrain patterning. Development. 1998 Mar;125(6):1025-36
1*	J:37450 Studer M, Lumsden A, Ariza-McNaughton L, Bradley A, Krumlauf R, Altered segmental identity and abnormal migration of motor neurons in mice lacking Hoxb-1. Nature. 1996 Dec 19-26;384(6610):630-4
1	J:56519 Sun X, Meyers EN, Lewandoski M, Martin GR, Targeted disruption of Fgf8 causes failure of cell migration in the gastrulating mouse embryo. Genes Dev. 1999 Jul 15;13(14):1834-46
1*	J:15577 Swiatek PJ, Gridley T, Perinatal lethality and defects in hindbrain development in mice homozygous for a targeted mutation of the zinc finger gene Krox20. Genes Dev. 1993 Nov;7(11):2071-84
1*	J:43764 Takihara Y, Tomotsune D, Shirai M, Katoh-Fukui Y, Nishii K, Motaleb MA , Nomura M , Tsuchiya R , Fujita Y , Shibata Y , Higashinakagawa T , Shimada K, Targeted disruption of the mouse homologue of the Drosophila polyhomeotic gene leads to altered anteroposterior patterning and neural crest defects. Development. 1997 Oct;124(19):3673-82
2*	J:174767 Tang F, Barbacioru C, Nordman E, Bao S, Lee C, Wang X, Tuch BB, Heard E, Lao K, Surani MA, Deterministic and stochastic allele specific gene expression in single mouse blastomeres. PLoS One. 2011;6(6):e21208
1	J:168146 Teo AK, Arnold SJ, Trotter MW, Brown S, Ang LT, Chng Z, Robertson EJ, Dunn NR, Vallier L, Pluripotency factors regulate definitive endoderm specification through eomesodermin. Genes Dev. 2011 Feb 1;25(3):238-50
1*	J:74910 Theil T, Ariza-McNaughton L, Manzanares M, Brodie J, Krumlauf R, Wilkinson DG, Requirement for downregulation of kreisler during late patterning of the hindbrain. Development. 2002 Mar;129(6):1477-85
1	J:277837 Thoby-Brisson M, Bouvier J, Glasco DM, Stewart ME, Dean C, Murdoch JN, Champagnat J, Fortin G, Chandrasekhar A, Brainstem respiratory oscillators develop independently of neuronal migration defects in the Wnt/PCP mouse mutant looptail. PLoS One. 2012;7(2):e31140
5*	J:215487 Thompson CL, Ng L, Menon V, Martinez S, Lee CK, Glattfelder K, Sunkin SM, Henry A, Lau C, Dang C, Garcia-Lopez R, Martinez-Ferre A, Pombero A, Rubenstein JL, Wakeman WB, Hohmann J, Dee N, Sodt AJ, Young R, Smith K, Nguyen TN, Kidney J, Kuan L, Jeromin A,Kaykas A, Miller J, Page D, Orta G, Bernard A, Riley Z, Smith S, Wohnoutka P, Hawrylycz MJ, Puelles L, Jones AR, A high-resolution spatiotemporal atlas of gene expression of the developing mouse brain. Neuron. 2014 Jul 16;83(2):309-23
3	J:327186 Tiana M, Lopez-Jimenez E, de Aja JS, Barral A, Victorino J, Badia-Careaga C, Rollan I, Rouco R, Santos E, Sanchez-Iranzo H, Acemel RD, Torroja C, Adan J, Andres-Leon E, Gomez-Skarmeta JL, Giovinazzo G, Sanchez-Cabo F, Manzanares M, Pluripotency factors regulate the onset of Hox cluster activation in the early embryo. Sci Adv. 2022 Jul 15;8(28):eabo3583
1*	J:65646 Tomotsune D, Shirai M, Takihara Y, Shimada K, Regulation of hoxb3 expression in the hindbrain and pharyngeal arches by rae28, a member of the mammalian polycomb group of genes. Mech Dev. 2000 Nov;98(1-2):165-9
1	J:81179 Trokovic N, Trokovic R, Mai P, Partanen J, Fgfr1 regulates patterning of the pharyngeal region. Genes Dev. 2003 Jan 1;17(1):141-53
4	J:119279 Tvrdik P, Capecchi MR, Reversal of Hox1 gene subfunctionalization in the mouse. Dev Cell. 2006 Aug;11(2):239-50
4	J:119939 Uehara M, Yashiro K, Mamiya S, Nishino J, Chambon P, Dolle P, Sakai Y, CYP26A1 and CYP26C1 cooperatively regulate anterior-posterior patterning of the developing brain and the production of migratory cranial neural crest cells in the mouse. Dev Biol. 2007 Feb 15;302(2):399-411
1*	J:86662 Urase K, Kouroku Y, Fujita E, Momoi T, Region of caspase-3 activation and programmed cell death in the early development of the mouse forebrain. Brain Res Dev Brain Res. 2003 Nov 12;145(2):241-8
2	J:185604 van Rooijen C, Simmini S, Bialecka M, Neijts R, van de Ven C, Beck F, Deschamps J, Evolutionarily conserved requirement of Cdx for post-occipital tissue emergence. Development. 2012 Jul;139(14):2576-83
2	J:194132 Vendrell V, Vazquez-Echeverria C, Lopez-Hernandez I, Alonso BD, Martinez S, Pujades C, Schimmang T, Roles of Wnt8a during formation and patterning of the mouse inner ear. Mech Dev. 2013 Feb;130(2-3):160-8
1	J:81969 Vermot J, Niederreither K, Garnier JM, Chambon P, Dolle P, Decreased embryonic retinoic acid synthesis results in a DiGeorge syndrome phenotype in newborn mice. Proc Natl Acad Sci U S A. 2003 Feb 18;100(4):1763-8
1	J:101718 Vincent SD, Dunn NR, Sciammas R, Shapiro-Shalef M, Davis MM, Calame K, Bikoff EK, Robertson EJ, The zinc finger transcriptional repressor Blimp1/Prdm1 is dispensable for early axis formation but is required for specification of primordial germ cells in the mouse. Development. 2005 Mar;132(6):1315-25
2	J:171613 Vitobello A, Ferretti E, Lampe X, Vilain N, Ducret S, Ori M, Spetz JF, Selleri L, Rijli FM, Hox and Pbx Factors Control Retinoic Acid Synthesis during Hindbrain Segmentation. Dev Cell. 2011 Apr 19;20(4):469-82
1*	J:73066 Voiculescu O, Taillebourg E, Pujades C, Kress C, Buart S, Charnay P, Schneider-Maunoury S, Hindbrain patterning: Krox20 couples segmentation and specification of regional identity. Development. 2001 Dec;128(24):4967-78
2	J:82399 Voncken JW, Roelen BA, Roefs M, de Vries S, Verhoeven E, Marino S, Deschamps J, van Lohuizen M, Rnf2 (Ring1b) deficiency causes gastrulation arrest and cell cycle inhibition. Proc Natl Acad Sci U S A. 2003 Mar 4;100(5):2468-73
1	J:96328 Warnecke M, Oster H, Revelli JP, Alvarez-Bolado G, Eichele G, Abnormal development of the locus coeruleus in Ear2(Nr2f6)-deficient mice impairs the functionality of the forebrain clock and affects nociception. Genes Dev. 2005 Mar 1;19(5):614-25
3*	J:42110 Wassarman KM, Lewandoski M, Campbell K, Joyner AL, Rubenstein JL , Martinez S , Martin GR, Specification of the anterior hindbrain and establishment of a normal mid/hindbrain organizer is dependent on Gbx2 gene function. Development. 1997 Aug;124(15):2923-34
1	J:141247 Wassef MA, Chomette D, Pouilhe M, Stedman A, Havis E, Desmarquet-Trin Dinh C, Schneider-Maunoury S, Gilardi-Hebenstreit P, Charnay P, Ghislain J, Rostral hindbrain patterning involves the direct activation of a Krox20 transcriptional enhancer by Hox/Pbx and Meis factors. Development. 2008 Oct;135(20):3369-78
1	J:139698 Wataya T, Ando S, Muguruma K, Ikeda H, Watanabe K, Eiraku M, Kawada M, Takahashi J, Hashimoto N, Sasai Y, Minimization of exogenous signals in ES cell culture induces rostral hypothalamic differentiation. Proc Natl Acad Sci U S A. 2008 Aug 19;105(33):11796-801
1*	J:69856 Wendling O, Ghyselinck NB, Chambon P, Mark M, Roles of retinoic acid receptors in early embryonic morphogenesis and hindbrain patterning. Development. 2001 Jun;128(11):2031-8
2	J:213512 Werber M, Wittler L, Timmermann B, Grote P, Herrmann BG, The tissue-specific transcriptomic landscape of the mid-gestational mouse embryo. Development. 2014 Jun;141(11):2325-30
3*	J:32270 Wilkinson DG, Bhatt S, Cook M, Boncinelli E, Krumlauf R, Segmental expression of Hox-2 homoeobox-containing genes in the developing mouse hindbrain. Nature. 1989 Oct 5;341(6241):405-9
1	J:203994 Wiszniak S, Kabbara S, Lumb R, Scherer M, Secker G, Harvey N, Kumar S, Schwarz Q, The ubiquitin ligase Nedd4 regulates craniofacial development by promoting cranial neural crest cell survival and stem-cell like properties. Dev Biol. 2013 Nov 15;383(2):186-200
2	J:152813 Wolf M, Lommes P, Sock E, Reiprich S, Friedrich RP, Kriesch J, Stolt CC, Bermingham JR Jr, Wegner M, Replacement of related POU transcription factors leads to severe defects in mouse forebrain development. Dev Biol. 2009 Aug 15;332(2):418-28
4	J:171463 Wong EY, Wang XA, Mak SS, Sae-Pang JJ, Ling KW, Fritzsch B, Sham MH, Hoxb3 negatively regulates Hoxb1 expression in mouse hindbrain patterning. Dev Biol. 2011 Apr 15;352(2):382-92
1	J:226712 Wong SF, Agarwal V, Mansfield JH, Denans N, Schwartz MG, Prosser HM, Pourquie O, Bartel DP, Tabin CJ, McGlinn E, Independent regulation of vertebral number and vertebral identity by microRNA-196 paralogs. Proc Natl Acad Sci U S A. 2015 Sep 1;112(35):E4884-93
1*	J:83659 Wright TJ, Mansour SL, Fgf3 and Fgf10 are required for mouse otic placode induction. Development. 2003 Aug;130(15):3379-90
2	J:79848 Xu PX, Zheng W, Laclef C, Maire P, Maas RL, Peters H, Xu X, Eya1 is required for the morphogenesis of mammalian thymus, parathyroid and thyroid. Development. 2002 Jul;129(13):3033-44
1*	J:160191 Xue XD, Kimura W, Wang B, Hikosaka K, Itakura T, Uezato T, Matsuda M, Koseki H, Miura N, A unique expression pattern of Tbx10 in the hindbrain as revealed by Tbx10(LacZ) allele. Genesis. 2010 May;48(5):295-302
1	J:222493 Yamaguchi YL, Tanaka SS, Kumagai M, Fujimoto Y, Terabayashi T, Matsui Y, Nishinakamura R, Sall4 is essential for mouse primordial germ cell specification by suppressing somatic cell program genes. Stem Cells. 2015 Jan;33(1):289-300
3*	J:156017 Yokoyama S, Ito Y, Ueno-Kudoh H, Shimizu H, Uchibe K, Albini S, Mitsuoka K, Miyaki S, Kiso M, Nagai A, Hikata T, Osada T, Fukuda N, Yamashita S, Harada D, Mezzano V, Kasai M, Puri PL, Hayashizaki Y, Okado H, Hashimoto M, Asahara H, A systems approach reveals that the myogenesis genome network is regulated by the transcriptional repressor RP58. Dev Cell. 2009 Dec;17(6):836-48
1*	J:70547 Zakany J, Kmita M, Alarcon P, de la Pompa JL, Duboule D, Localized and transient transcription of Hox genes suggests a link between patterning and the segmentation clock. Cell. 2001 Jul 27;106(2):207-17
1	J:252306 Zakaria S, Mao Y, Kuta A, de Sousa CF, Gaufo GO, McNeill H, Hindges R, Guthrie S, Irvine KD, Francis-West PH, Regulation of neuronal migration by Dchs1-Fat4 planar cell polarity. Curr Biol. 2014 Jul 21;24(14):1620-1627
1	J:124118 Zelarayan LC, Vendrell V, Alvarez Y, Dominguez-Frutos E, Theil T, Alonso MT, Maconochie M, Schimmang T, Differential requirements for FGF3, FGF8 and FGF10 during inner ear development. Dev Biol. 2007 Aug 15;308(2):379-91
1*	J:308982 Zhang H, Xie J, So KKH, Tong KK, Sae-Pang JJ, Wang L, Tsang SL, Chan WY, Wong EYM, Sham MH, Hoxb3 Regulates Jag1 Expression in Pharyngeal Epithelium and Affects Interaction With Neural Crest Cells. Front Physiol. 2020;11:612230
1*	J:20158 Zhang M, Kim HJ, Marshall H, Gendron-Maguire M, Lucas DA, Baron A, Gudas LJ, Gridley T, Krumlauf R, Grippo JF, Ectopic Hoxa-1 induces rhombomere transformation in mouse hindbrain. Development. 1994 Sep;120(9):2431-42
1	J:225113 Zhang Y, Liu Z, Medrzycki M, Cao K, Fan Y, Reduction of Hox gene expression by histone H1 depletion. PLoS One. 2012;7(6):e38829
1	J:112457 Zhang Z, Huynh T, Baldini A, Mesodermal expression of Tbx1 is necessary and sufficient for pharyngeal arch and cardiac outflow tract development. Development. 2006 Sep;133(18):3587-95
1*	J:41878 Zoltewicz JS, Plummer NW, Lin MI, Peterson AS, oto is a homeotic locus with a role in anteroposterior development that is partially redundant with Lim1. Development. 1999 Nov;126(22):5085-95