sequencher* the best ,r sequencing dna?genesdev.cshlp.org/content/9/11/local/front-matter.pdf ·...

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"Sequencher has provided us with an easy to use and effective approach to editing our sequences, assembling the data into easily edited contigs, and archiving the trace data...The other thing I appreciate is the level of technical support... [Gene Codes] set new standards for the term 'customer satisfaction.'" Audrey Goddard Head, DNA Sequencing Core Genentech, Inc. "An exceptional sequence assembly program...Their response time with fixes or enhancements is nothing short of miraculous..." Harry Mangalam Department of Biocomputing The Salk Institute Sequencher* the best ,r sequencing DNA? :ation, is the state-of-the-art in Sequencher is more than just It represents revolutionary in user-interface design, speed and accuracy, and integration of analysis functions. With Sequencher, your ii:~i)iii)~iii~ii)Iab will increase , ,., ~ . [ ~I~::-~:~:-~::~:::-~;:~:~ ra item 6P(#).CO n I.)IUUU~.~ LIu I. V ~ ! {;;;[4l,/,4l, I., (;; .>~-' ""l fie AC T [ l AACT G AT T AC T I fll .'F~ I IN C As TC I B[ ~T G AT T flCT l l x v " :I: (:! ~ , :::I:: I~ ~ ~, analvsis time and ~'~ ~,'~,'.=/i,'~ /'::. ,' ~ .,! ,,//.,~/I/'! /!. ~I 93$0200 "O2 of 407 9~:~20~ "16S of ~>6:~ integrityand qual- ~aaa;a;aaaa; , ~a~;aa;aaa;li~;~ag;g;a;~;a;ag;~/~ /~ /'.~ i~ i! ~,~ ity of your results. ,. ,:,.,,]~_~.'i ~ ~, ~re ,, r'+~,/'~i t"., ,%11, ,a/x # ,, i~ r, ' ~o+~. :~ ~.,,',,,.,~ : . ',,,;~ :~ ontig assembly and editing functions are exceptional. And Sequencher's in depth sequencing support includes vector screening, ORF reports, protein translations, re- ~;"~;on maps and a fantastic interface mlar fluorescent sequencers. "I had been spending 3 to 4 hours a day on analysis. Since the day I received Sequencher, I have spent 1/2 hour on average. Sequencher has freed me from most of the tedious parts of analysis, and allows me to draw conclusions from my data much more quickly." Steve Ellis Millennium Pharmaceuticals, Inc. "After demos of all of them...Sequencher is the best. Nothing else came close." Paul Morrison Dir., Molecular Biology Core Facility Dana-Farber Cancer Institute "Gene Codes has raised my standards for what to expect from a software company." Naomi Thomson Molecular Biology Department Bristol-Myers Squibb "Oh boy!" Ripley Parrot Genome Proponent Gene Codes Corporation i i!iii!i : i /i i/i: i;iiiiiii i ili:i;/Li !i i ! i!! i!i!iiiiiiiiiiilg ................. iiii!i; Gene Codes' unmatched level of support includes program updates with the features you need. For example 9 Trim the low-quality ends from your fragments, build your configs )'!'!{i'~!i~'!i!!!!!!!'~'~nd then recover the data you masked off. 9 Choose either 'incremental' or 'exhaustive' comparisons, adding frag- ments to existing projects without losing edits, or re- comparing all old and new data for optimal assembly order. 9 Export results in the file formats that work best for you; If you need a new format, ask us. ~co,,,~,00~ i-,-~,- ~:~,~, i~,~i~!~ew n 95, Sequencher 3.0 has $o.,.,~., .o. ~ : _ .It I~ I)t11[~1 80flOflA R --~0 Rar TO0 ~FIRI~IGO~ rOT I | been ~crelor~tod F~r nc~X~Tor ~o.,.,~,, ~o m ....... ~c ................ ,~ o,,..(oo, 7) ~,,o-~0t0r~ Macintosh, and has more ::: features... HUMPRCA[O005] agn tea gaa gtc ctc ctc aga cag gng GRA TNI CCG GCA CAC CAG CTC CIC ING E ? P fl H O l L ? GTA AGG CCQ CCC CAC CCC TflC CCC GGG ~]~i,~,~ m I a34o 13~0 I aa60 3 ~ ~G~GARROAROARRA0CTO0CRRRAOGROTOT1, '~=*" B K K K s w o K E ~C u[~l Iiii:iii//i~ii ii]ii~iiNiiiii ii~ii/iiiiiUiiii~NiiiiiLlli]iiiii~gii~ 1 r "mz'-~>---- t ~'~,__+ ~I:=F . . . . VFI:F 4,527 I ...try it for yourself: Call for a demo disk including free restriction mapping software. Gene Codes Corporation 1" C A 2901 Hubbard Road A (~ 1" Ann Arbor, MI 48105 nhnne-~1~ 769 7~.9 nr gOD ~97 "0t0 f~v. ~1~ 7/~q 7f17a

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Page 1: Sequencher* the best ,r sequencing DNA?genesdev.cshlp.org/content/9/11/local/front-matter.pdf · "Sequencher has provided us with an easy to use and effective approach to editing

"Sequencher has provided us with an easy to use and effective approach to editing our sequences, assembling the data into easily edited contigs, and archiving the trace data. . .The o ther thing I appreciate is the level of technical support. . . [Gene Codes] set new standards for the term 'cus tomer satisfaction.'"

Audrey Goddard Head, DNA Sequencing Core Genentech, Inc.

"An exceptional sequence assembly program. . .Thei r response t ime with fixes or enhancements is noth ing short of miraculous..."

Harry Mangalam Department of Biocomputing The Salk Institute

Sequencher* the best ,r sequencing DNA? :ation, is the state-of-the-art in Sequencher is more than just It represents revolutionary

in user-interface design, speed and accuracy, and i n t e g r a t i o n of analysis functions. With Sequencher, your ii:~i)iii)~iii~ii)Iab will increase , ,., ~ .

[ ~ I ~ : : - ~ : ~ : - ~ : : ~ : : : - ~ ; : ~ : ~ ra . . . . . item 6P(#).CO n

I . ) I U U U ~ . ~ L I u I. V ~ ! {;;; [4l,/,4l, I., (;; .>~-' ""l f ie AC T [ l A A C T G AT T AC T I f l l .'F~ I I N C As TC I B [ ~T G AT T f lCT l l x v " :I: (:! ~ , :::I:: I~ ~ ~,

analvsis time and ~'~ ~,'~,'.=/i,'~ /'::. ,' ~ .,! ,,//.,~/I/'! /!. ~I 93$0200 "O2 of 407 9~:~20~ "16S of ~>6:~

integrityand qual- ~aaa;a;aaaa;,~a~;aa;aaa;;li~;;~ag;g;a;~;a;;;ag;;~/~ /~ /'.~ i~ i! ~,~ ity of your results. ,. ,:,.,,]~_~.'i ~ ~, ~re ,, r'+~,/'~i t"., ,%11, ,a/x # ,, i~ r, '

~o+~. : ~ ~.,,',,,.,~ : . ' , , , ; ~ : ~

ontig assembly and editing functions are exceptional. And Sequencher's in depth sequencing support includes vector screening, ORF reports, protein translations, re-

~;"~;on maps and a fantastic interface mlar fluorescent sequencers.

"I had been spending 3 to 4 hours a day on analysis. Since the day I received Sequencher, I have spent 1/2 hour on average. Sequencher has freed me from most of the tedious parts of analysis, and allows me to draw conclusions from my data much more quickly."

Steve Ellis Millennium Pharmaceuticals, Inc.

"After demos of all of them. . .Sequencher is the best. No th ing else came close."

Paul Morrison Dir., Molecular Biology Core Facility Dana-Farber Cancer Institute

"Gene Codes has raised my standards for what to expect f rom a software company."

Naomi Thomson Molecular Biology Department Bristol-Myers Squibb

" O h boy!" Ripley Parrot Genome Proponent Gene Codes Corporation

i i!iii!i : i /i i/i: i;iiiiiii i ili:i;/Li !i i ! i!! i!i!iiiiiiiiiiilg . . . . . . . . . . . . . . . . . iiii!i;

Gene Codes' unmatched level of support includes program updates with the features you need. For example �9 Trim the low-quality ends from your fragments, build your configs

)'!'!{i'~!i~'!i!!!!!!!'~'~nd then recover the data you masked off. �9 Choose either 'incremental' or 'exhaustive' comparisons, adding frag- ments to existing projects without losing edits, or re- comparing all old and new data for optimal assembly order. �9 Export results in the file formats that work best for you; If you need a new format, ask us. ~co, , ,~ ,00~ i - , - ~ , -

~:~,~, i~,~i~!~ew n 95, Sequencher 3.0 has $o.,.,~., .o. ~ : _ . I t I ~ I ) t 1 1 [ ~ 1 80flOflA R --~0 Rar T O0 ~FIRI~IGO~ r OT I

| been ~ c r e l o r ~ t o d F~r nc~X~Tor ~o.,.,~,, ~o m ....... ~c ................ ,~ o,,..(oo, 7) ~,,o-~0t0r~

Macintosh, and has more ::: features...

HUMPRCA[O005]

agn tea gaa gtc ctc ctc aga cag gng

GRA TNI CCG GCA CAC CAG CTC CIC ING E ? P fl H O l L ?

GTA AGG CCQ CCC CAC CCC TflC CCC GGG

~ ] ~ i , ~ , ~ m I a34o 13~0 I aa60 3 ~ ~G~GARROAROARRA0CTO0CRRRAOGROTOT1,

' ~= * " B K K K s w o K E ~C u[~l

Iiii:i ii//i~ii ii]i i~iiNiiiii ii~ii/iiiiiUiiii~NiiiiiLlli]iiiii~gii~ 1 r

"mz'-~>---- t

~ ' ~ , _ _ +

~I:=F . . . . VFI:F 4,527 I

...try it for yourself: Call for a demo disk including free restriction mapping software.

G e n e Codes Corporation 1 " C A 2901 Hubbard Road A ( ~ 1" Ann Arbor, MI 48105 nhnne-~1~ 769 7~.9 nr gOD ~97 "0t0 f~v. ~1~ 7/~q 7f17a

Page 2: Sequencher* the best ,r sequencing DNA?genesdev.cshlp.org/content/9/11/local/front-matter.pdf · "Sequencher has provided us with an easy to use and effective approach to editing

V O L U M E 9

GENES

DEVELOPMENT N U M B E R 11 PAGES 1289--1426 JUNE 1, 1995

EDITORIAL BOARD

J. Adams (Melbourne, Australia) J. Beckwith (Boston, USA) A. Berns {Amsterdam, The Netherlands) E. Blackburn (San Francisco, USA) T. Cech (Boulder, USA) P. Chambon {Strasbourg, France) N.-H. Chua {New York, USA) E. Coen {Norwich, UK) S. Courtneidge (Heidelberg, FRG) R. Evans {La Jolla, USA) G. Fink {Cambridge, USA) P. Goodfellow {Cambridge, UK) S. Gottesman (Bethesda, USA) T. Graf (Heidelberg, FRG) C. Gross {San Francisco, USA) R. Grosschedl {San Francisco, USA) F. Grosveld (Rotterdam, The Netherlands) M. Groudine (Seattle, USA) L. Guarente (Cambridge, USA) R. Harland (Berkeley, USA) E. Harlow (Charlestown, USA) W. Herr (Cold Spring Harbor, USA) J. Hodgkin (Cambridge, UK) R. Horvitz (Cambridge, USA) P. Ingham (London, UK) T. Jessell (New York, USA) N. Jones (London, UK)

Editorial~Production N. Dumser, Technical Editor V. Nicolette, Production Editor L. Olsewski, Editorial Secretary

J. Kadonaga (La Jolla, USA) R. Lehmann (Cambridge, USA) M. Levine (San Diego, USA) D. Livingston (Boston, USA) R. Losick (Cambridge, USA) J. Manley {New York, USA) W. McGinnis (New Haven, USA) S. McKnight (South San Francisco, USA) R. McKay (Bethesda, USA) A. McMahon (Cambridge, USA) P. Nurse (London, UK) R. Palmiter (Seattle, USA) L. Parada (Dallas, USA) C. Prives (New York, USA) G. Rubin (Berkeley, USA) U. Schibler (Geneva, Switzerland) P. Sharp (Cambridge, USA) C. Sherr (Memphis, USA) D. Sherratt (Oxford, UK) D. Solter (Freiburg, FRG) P. Soriano (Seattle, USA) J. Steitz (New Haven, USA) M. Takeichi {Kyoto, Japan) T. Taniguchi (Tokyo, Japan) S. Tilghman (Princeton, USA) R. Tjian (Berkeley, USA) M. Wigler (Cold Spring Harbor, USA)

EDITORIAL OFFICES

United States Cold Spring Harbor Laboratory Press Box 100, 1 Bungtown Road Cold Spring Harbor, New York 11724-2203 Phone 516-367-8492 FAX 516-367-8532

Editors T. Grodzicker (Cold Spring Harbor) N. Hastie (Edinburgh)

Managing Editor J. Cuddihy (Cold Spring Harbor)

United Kingdom MRC Human Genetics Unit Western General Hospital Crewe Road Edinburgh EH4 2XU, UK Phone 031-332-8676 FAX 031-332- 7359

G~s & DEV~OPM~rr (ISSN 0890-9369) is published semimonthly for $485 (institutional), $120 {individual making personal payment), $167 {Genet- ical Society of Great Britain members) by Cold Spring Harbor Laboratory Press, Bungtown Road, Cold Spring Harbor, New York 11724, in associ- ation with the Genetical Society of Great Britain. Second-class postage is paid at Cold Spring Harbor and additional mailing offices. POSTMAS- TER: Send address changes to Cold Spring Harbor Laboratory Press, POB 100, 1 Bungtown Rd., Cold Spring Harbor, New York 11724-2203. Subscription Price Orders may be sent to Cold Spnng Harbor Labora- tory Press, Fulfillment Department, 10 Skyline Drive, Plainview, NY 11803-9729. Telephone: Continental US except NY State, 1-800-843- 4388; all other locations, 516-349-1930/1931/1932. FAX 516-349-1946. Volume 9, 1995, $485, U.S. institutional; $580, R.O.W. institutional. Personal subscription rate: $120, U.S.; $215, R.O.W. Price includes sur- face postage for U.S. and airlift for R.O.W. Genetical Society members, $167.00. All subscriptions are entered for the calendar year and must be prepaid. Personal subscriptions must be prepaid by personal check, credit card, or money order. All checks must be for US dollars and drawn on a US bank. Genetical Society members may also subscribe by check, payable to the Genetical Society, for $167 (includes airlift). Send to: Dr.

Veronica van Heyningen, MRC Human Genetics Unit, Western General Hospital, Crewe Road, Edinburgh EH4 2XU, UK.

Claims for missing issues must be received within 4 months of issue date. Change of address Please enclose recent mailing label with address change; allow 4 weeks. Advertising To advertise in Genes & Development, contact Deborah Dufton, Advertising Manager, Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York 11724-2203; telephone 516-367-8351. Photo Copy Authorization to photocopy items for internal or personal use, or the internal or personal use of specific clients, is granted by Cold Spring Harbor Laboratory Press for libraries and other users registered with the Copyright Clearance Center [CCC) Transactional Reporting Service, provided that the base fee of $5.00 per copy is paid directly to CCC, 21 Congress St., Salem, MA 01970 {0890-9369/95 $5.00 + 0.J. This consent does not extend to other kinds of copying, such as copying for general distribution for advertising or promotional purposes, for creating new collective works, or for resale. Copyright �9 1995 by Cold Spring Harbor Laboratory Press

Page 3: Sequencher* the best ,r sequencing DNA?genesdev.cshlp.org/content/9/11/local/front-matter.pdf · "Sequencher has provided us with an easy to use and effective approach to editing

Contents GENES & DEVELOPMENT June 1, 1995

Meeting review

Oncogenes: 20 years later Inder M. Verma and Peter K. Vogt and session chairpersons

Thinking about Howard Temin David Baltimore

Cancer: the rise of the genetic paradigm J. Michael Bishop

Research papers

A conjugation-like mechanism for prespore chromosome partitioning during spomlation in Bacillus subtilis Ling Juan Wu, Peter J. Lewis, Rudolf Allmansberger, Philippe M. Hauser, and Jeffery Errington

Distinct modes of cyclin E/cdc2c kinase regulation and S-phase control in mitotic and endoreduplication cycles of Drosophila embryogenesis Karsten Sauer, Jfirgen A. Knoblich, Helena Richardson, and Christian F. Lehner

Regulation of the retinoblastoma protein-related p107 by G1 cyclin complexes Roderick L. Beijersbergen, Leone Carl&, Ron M. Kerkhoven, and Ren6 Bemards

Activation of the TFIID-TFIIA complex with HMG-2 Benjamin M. Shykind, Jaesang Kim, and Phillip A. Sharp

Dissection of progesterone receptor-mediated chromatin remodeling and transcriptional activation in vivo Joe S. Mymryk and Trevor K. Archer

Pip, a novel IRF family member, is a lymphoid-specific, PU.l-dependent transcriptional activator Charles F. Eisenbeis, Harinder Singh, and Ursula Storb

Inactivation of the myogenic bHLH gene MRF4 results in up-regulation of myogenin and rib anomalies Wei Zhang, Richard R. Behringer, and Eric N. Olson

Overexpression of the arginine-rich carboxy-terminal region of U1 snRNP 70K inhibits both splicing and nucleocytoplasmic transport of mRNA Joelle M.-J. Romac and Jack D. Keene

Exonucleolytic processing of small nucleolar RNAs from pre-mRNA introns Tam~s Kiss and Witold Filipowicz

Product news

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Cover Septation and DNA partitioning in spomlating B. subtilis cells. {Top two panelsl Wild-type strain SG38; (bottom two panels) spoHG mutant strain 901. (For details, see Wu et al., p. 1316.)