Chromosome structural analysis: a practical approach
Saved in:
| Format: | Book |
|---|---|
| Language: | English |
| Published: |
Oxford [u.a.]
Oxford Univ. Pr.
1999
|
| Series: | The practical approach series
200 |
| Subjects: | |
| Online Access: | Inhaltsverzeichnis |
| Physical Description: | XXIII, 209 S. Ill., graph. Darst. |
| ISBN: | 0199636990 0199636982 |
Staff View
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| 245 | 1 | 0 | |a Chromosome structural analysis |b a practical approach |c ed. by Wendy A. Bickmore |
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Record in the Search Index
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|---|---|
| adam_text | CHROMOSOME STRUCTURAL ANALYSIS A PRACTICAL APPROACH EDITED BY WENDY A.
BICKMORE CELL GENETICS SECTION, MRC HUMAN GENETICS UNIT, WESTERN GENERAL
HOSPITAL, EDINBURGH OXJORD UNIVERSITY PRESS 1999 CONTENTS LIST OF
CONTRIBUTORS ABBREVIATIONS 1. MAPPING PROTEIN/DNA INTERACTIONS IN VIVO
USING LIGATION-MEDIATED POLYMERASE CHAIN REACTION 1 DONALD MACLEOD 1.
INTRODUCTION 1 METHODS USED IN DETERMINING PROTEIN/DNA INTERACTIONS IN
VITRO 1 DETERMINING PROTEIN/DNA INTERACTIONS IN VIVO 2 2. THE
LIGATION-MEDIATED POLYMERASE CHAIN REACTION (LMPCR) 3 APPLICATIONS OF
LMPCR 4 3. MAPPING PROTEIN FACTOR BINDING SITES IN VIVO WITH LMPCR AND
DMS 5 DNA MODIFICATION BY DMS IN VITRO 5 DMS MODIFICATION OF DNA IN VIVO
7 AMPLIFICATION OF DMS/PIPERIDINE-CLEAVED DNA BY LMPCR 7 ANALYSIS OF
LMPCR REACTIONS 9 4. MAPPING NUCLEOSOMES USING MICROCOCCAL NUCLEASE AND
LMPCR 13 ISOLATION OF NUCLEI FROM CULTURED CELLS 13 PREPARATION OF DNA
FROM NUCLEI TREATED WITH MNASE 14 CLEAVAGE OF GENOMIC DNA WITH MNASE 16
ACKNOWLEDGEMENTS 18 REFERENCES 18 2. MAPPING DNA TARGET SITES OF
CHROMATIN- ASSOCIATED PROTEINS BY FORMALDEHYDE CROSS-LINKING IN
DROSOPHILA EMBRYOS 21 GIACOMO CAVALLI, VALERIO ORLANDO, AND RENATO PARO
1. INTRODUCTION 21 2. OUTLINE OF THE METHOD 22 CONTENTS 3. FORMALDEHYDE
CROSS-LINKING IN STAGED DROSOPHILA EMBRYOS 23 PREPARATION OF FLY CAGES
AND COLLECTION OF STAGED EMBRYOS 23 OPTIMIZING CROSS-LINKING CONDITIONS
24 4. IMMUNOPRECIPITATION OF CROSS-LINKED EMBRYONIC CHROMATIN AND PCR
AMPLIFICATION OF THE IMMUNOPRECIPITATED DNA 28 5. ANALYSING THE
ENRICHMENT OF PUTATIVE TARGET SEQUENCES IN THE PCR-AMPLIFIED DNA 31
SLOT-BLOT ANALYSIS OF THE ENRICHMENT OF PUTATIVE PC TARGET SEQUENCES 31
MAPPING DNA TARGET SITES FOR POLYCOMB AND GAGA FACTOR IN THE DROSOPHILA
BITHORAX COMPLEX 31 6. CONCLUDING REMARKS 36 REFERENCES 37 3. FISSION
YEAST CHROMOSOME ANALYSIS: FLUORESCENCE IN SITU HYBRIDIZATION (FISH) AND
CHROMATIN IMMUNOPRECIPITATION (CHIP) 39 KARL EKWALL AND JANET F.
PARTRIDGE 1. INTRODUCTION 39 2. FLUORESCENCE IN SITU HYBRIDIZATION
(FISH) ANALYSIS OF FISSION YEAST 40 PREPARATION OF PROBES 40 CELL
FIXATION AND CELL-WALL DIGESTION 43 3. CHROMATIN IMMUNOPRECIPITATION
FROM FISSION YEAST 48 FIXATION OF YEAST CELLS TO MAINTAIN PROTEIN
LOCALIZATION 49 PREPARATION OF CHROMATIN EXTRACT 50 IMMUNOPRECIPITATION
OF CHROMATIN 51 ANALYSIS OF IMMUNOPRECIPITATED DNA SEQUENCES 55
ACKNOWLEDGEMENTS 56 REFERENCES 56 4. ISOLATION OF VERTEBRATE METAPHASE
CHROMOSOMES AND THEIR ANALYSIS BY FISH 59 JEFF CRAIG 1. INTRODUCTION 59
2. GENERAL EQUIPMENT REQUIRED FOR FISH 59 XII CONTENTS 3. PRODUCTION OF
METAPHASE CHROMOSOMES AS SUBSTRATES FOR FISH PRODUCTION OF FIXED
METAPHASE CHROMOSOME SPREADS PRODUCTION OF LONG PROMETAPHASE CHROMOSOMES
ISOLATION OF SUSPENSIONS OF UNFIXED METAPHASE CHROMOSOMES 4. SPREADING
FIXED CHROMOSOMES 5. PRETREATMENTS OF SLIDES PRETREATMENT OF MITOTIC
CHROMOSOME SPREADS SALT EXTRACTION OF ISOLATED METAPHASE CHROMOSOMES 6.
LABELLING DNA PROBES CHOICE OF LABEL NICK TRANSLATION RANDOM PRIMING
LABELLING BY PCR QUANTIFYING LABEL INCORPORATION 7. HYBRIDIZATION
PREPARATION OF PROBES AND SLIDES HYBRIDIZATION 8. DETECTING HYBRIDIZED
PROBE 9. COUNTERSTAINING AND MOUNTING SIMPLE COUNTERSTAINING CHROMOSOME
BANDING ACKNOWLEDGEMENTS REFERENCES 60 60 62 63 65 66 66 67 69 69 69 70
70 71 72 72 73 75 77 77 77 78 78 5. STUDYING PROGRESSION OF VERTEBRATE
CHROMOSOMES THROUGH MITOSIS BY IMMUNOFLUORESCENCE AND FISH SI BETH A.
SULLIVAN AND PETER E. WARBURTON 1. INTRODUCTION 81 2. FUNDAMENTAL
ASPECTS OF MITOSIS 81 THE MITOTIC SPINDLE 81 CHROMOSOMES 82 3. DETECTING
CENTROMERE/KINETOCHORE PROTEINS ON METAPHASE CHROMOSOMES 83 4. IN SITU
HYBRIDIZATION FOLLOWING IMMUNOFLUORESCENCE 87 5. THE USE OF ANTI-MITOTIC
DRUGS 90 COLCEMID/COLCHICINE 90 NOCODAZOLE 91 XIII CONTENTS VINBLASTINE
AND OTHER DRUGS 91 CYTOCHALASIN/DIHYDROCYTOCHALASIN B (DCB) 91 6.
IMMUNOFLUORESCENCE ON ANAPHASE AND TELOPHASE CELLS/CHROMOSOMES 92
C-ANAPHASE: SISTER CHROMATID SEPARATION AND ANAPHASE IN THE PRESENCE OF
COLCEMID 92 ANAPHASE CHROMOSOMES VISUALIZED ON THE MITOTIC SPINDLE 94
ANAPHASE STUDIES ON CYTOKINESIS-BLOCKED CELLS 96 REFERENCES 100 ANALYSIS
OF MAMMALIAN INTERPHASE CHROMOSOMES BY FISH AND IMMUNOFLUORESCENCE 103
JOANNA M. BRIDGER AND PETER LICHTER 1. INTRODUCTION 103 2. PREPARATION
OF SAMPLE MATERIAL 105 ADHERENT CELLS 105 SUSPENSION CELLS 106 DNA HALO
PREPARATIONS 106 FIXATION AND PERMEABILIZATION 107 IMPROVING PROBE
PENETRATION 109 3. PROBES 111 CHROMOSOMAL PAINTING PROBES 111 PROBE
LABELLING 112 4. FLUORESCENCE IN SITU HYBRIDIZATION 113 DENATURATION 113
HYBRIDIZATION - 115 WASHING 115 DETECTION OF REPORTER MOLECULES 116 5.
IMMUNOFLUORESCENCE IN COMBINATION WITH FISH 116 PRIMARY AND SECONDARY
ANTIBODY INCUBATIONS AFTER FISH 118 PRIMARY ANTIBODY INCUBATION
PREDENATURATION AND SECONDARY ANTIBODY INCUBATION POSTDENATURATION 119
PRIMARY AND SECONDARY ANTIBODY INCUBATIONS PRIOR TO FISH DENATURATION
119 REPORTER-CONJUGATED PRIMARY ANTIBODY INCUBATED PREDENATURATION 119
6. MOUNTING THE SLIDES 119 7. ANALYSIS 120 REFERENCES 121 XIV CONTENTS
7. FLUORESCENCE IN SITU HYBRIDIZATION IN WHOLE-MOUNT TISSUES 125 ABBY F.
DERNBURG 1. INTRODUCTION 125 2. PROBE SYNTHESIS AND LABELLING 127
GENERAL CONSIDERATIONS 127 WHY USE FLUORESCENCE-BASED DETECTION? 127
CHOICE OF LABELLING AND DETECTION REAGENTS 128 PROBE SYNTHESIS 131 3.
FIXATION METHODS FOR WHOLE-MOUNT FISH 133 4. HYBRIDIZATION METHODS 136
5. TROUBLESHOOTING 141 6. MICROSCOPY AND IMAGE ANALYSIS 143 7. FUTURE
DIRECTIONS 144 REFERENCES 144 ACKNOWLEDGEMENT 144 8. ANALYSING THE
SUBSTRUCTURE OF MAMMALIAN NUCLEI, IN VITRO UI DEAN A. JACKSON 1.
INTRODUCTION 147 2. THE NUCLEAR MATRIX AND NUCLEOSKELETON 147 3. METHODS
USED TO ANALYSE NUCLEAR ORGANIZATION 148 THE NUCLEAR MATRIX 148
NUCLEOIDS . 149 THE NUCLEAR SCAFFOLD 150 THE LOW-SALT NUCLEAR MATRIX
151 THE NUCLEOSKELETON 151 4. STUDYING THE CHROMATIN LOOPS OF DIFFERENT
NUCLEAR DERIVATIVES 153 CHROMATIN LOOPS AFTER HYPERTONIC OR HYPOTONIC
TREATMENT 153 CHROMATIN LOOPS UNDER PHYSIOLOGICAL CONDITIONS 154
TECHNICAL TIPS ON CUTTING AND ELECTROELUTING CHROMATIN 156 THE FREQUENCY
AND NATURE OF ATTACHMENT SITES IN DIFFERENT NUCLEAR DERIVATIVES 157 5.
THE MORPHOLOGY OF DIFFERENT NUCLEAR DERIVATIVES 159 6. ASSAYING NUCLEAR
FUNCTION AND NUCLEAR PROTEINS IN PERMEABILIZED CELLS 160 LABELLING SITES
OF REPLICATION AND TRANSCRIPTION IN VITRO 160 TECHNICAL TIPS ON
LABELLING SITES OF REPLICATION AND TRANSCRIPTION 161 XV CONTENTS
STUDYING PROTEIN DISTRIBUTION RELATIVE TO SITES OF TRANSCRIPTION OR
REPLICATION IN PERMEABILIZED CELLS. 162 A TYPICAL EXAMPLE 164 7.
CONCLUSIONS 164 REFERENCES 165 9. CHROMOSOME ASSEMBLY IN VITRO USING
XENOPUS EGG EXTRACTS UI JASON R. SWEDLOW 1. INTRODUCTION 167 2.
CHROMOSOME STRUCTURE AND BIOCHEMISTRY 167 3. PREPARATION OF XENOPUS EGG
EXTRACTS FOR CHROMATIN AND CHROMOSOME ASSEMBLY IN VITRO 168 XENOPUS EGG
MATURATION 168 XENOPUS EGG EXTRACTS 168 CHROMOSOME ASSEMBLY
EXTRACTS*TECHNICAL TIPS 169 4. CHROMATIN AND CHROMOSOME ASSEMBLY IN
VITRO 175 ASSEMBLY AND ISOLATION OF CHROMATIN AND CHROMOSOMES*TECHNICAL
TIPS 175 5. IMMUNOFLUORESCENCE OF IN VITRO ASSEMBLED CHROMOSOMES 178 6.
FUNCTIONAL ANALYSIS OF THE ROLE OF SPECIFIC PROTEINS IN CHROMATIN AND
CHROMOSOME STRUCTURE BY IMMUNODEPLETION 180 ACKNOWLEDGEMENTS 181
REFERENCES 182 10. CHROMOSOME FRAGMENTATION IN VERTEBRATE CELL LINES 183
CHRISTINE J. FARR 1. INTRODUCTION 183 2. TELOMERE-ASSOCIATED CHROMOSOME
FRAGMENTATION 183 3. EXPERIMENTALLY INDUCED DE NOVO TELOMERE FORMATION
185 DESIGN OF THE TELOMERE-SEEDING CONSTRUCT 185 TRANSFECTION OF THE
TELOMERE-SEEDING CONSTRUCT 186 SCREENING STABLE TRANSFECTANTS FOR DE
NOVO TELOMERE FORMATION 188 4. TARGETED DE NOVO TELOMERE FORMATION 191
5. TARGETED TRUNCATION EVENTS IN THE RECOMBINATION-PROFICIENT AVIAN CELL
LINE DT40 192 XVI CONTENTS 6. THE CHARACTERIZATION OF CHROMOSOMES
MODIFIED BY DE NOVO TELOMERE FORMATION AND FRAGMENTATION 193 ESTIMATION
OF MINICHROMOSOME SIZE 194 ASSAYS FOR MITOTIC STABILITY OF
MINICHROMOSOMES 196 7. CONCLUDING REMARKS 197 REFERENCES 197 AL. LIST OF
SUPPLIERS 199 INDEX 207 XVLL
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| id | DE-604.BV012621099 |
| illustrated | Illustrated |
| indexdate | 2024-07-09T18:30:45Z |
| institution | BVB |
| isbn | 0199636990 0199636982 |
| language | English |
| oai_aleph_id | oai:aleph.bib-bvb.de:BVB01-008572898 |
| oclc_num | 40061359 |
| open_access_boolean | |
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| owner_facet | DE-M49 DE-BY-TUM DE-355 DE-BY-UBR DE-11 |
| physical | XXIII, 209 S. Ill., graph. Darst. |
| publishDate | 1999 |
| publishDateSearch | 1999 |
| publishDateSort | 1999 |
| publisher | Oxford Univ. Pr. |
| record_format | marc |
| series | The practical approach series |
| series2 | The practical approach series |
| spelling | Chromosome structural analysis a practical approach ed. by Wendy A. Bickmore Oxford [u.a.] Oxford Univ. Pr. 1999 XXIII, 209 S. Ill., graph. Darst. txt rdacontent n rdamedia nc rdacarrier The practical approach series 200 Chromatine ram Chromosomes - Laboratory manuals Chromosomes - Manuels de laboratoire ram Genetics - Laboratory manuals Génétique - Manuels de laboratoire ram Transcription génétique ram Chromosomes Laboratory manuals Chromosomes genetics Laboratory Manuals Chromosomes ultrastructure Laboratory Manuals Genetics Laboratory manuals Strukturanalyse (DE-588)4183787-3 gnd rswk-swf Chromosom (DE-588)4010162-9 gnd rswk-swf Chromosom (DE-588)4010162-9 s Strukturanalyse (DE-588)4183787-3 s DE-604 Bickmore, Wendy A. Sonstige oth The practical approach series 200 (DE-604)BV007921321 200 GBV Datenaustausch application/pdf http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008572898&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA Inhaltsverzeichnis |
| spellingShingle | Chromosome structural analysis a practical approach The practical approach series Chromatine ram Chromosomes - Laboratory manuals Chromosomes - Manuels de laboratoire ram Genetics - Laboratory manuals Génétique - Manuels de laboratoire ram Transcription génétique ram Chromosomes Laboratory manuals Chromosomes genetics Laboratory Manuals Chromosomes ultrastructure Laboratory Manuals Genetics Laboratory manuals Strukturanalyse (DE-588)4183787-3 gnd Chromosom (DE-588)4010162-9 gnd |
| subject_GND | (DE-588)4183787-3 (DE-588)4010162-9 |
| title | Chromosome structural analysis a practical approach |
| title_auth | Chromosome structural analysis a practical approach |
| title_exact_search | Chromosome structural analysis a practical approach |
| title_full | Chromosome structural analysis a practical approach ed. by Wendy A. Bickmore |
| title_fullStr | Chromosome structural analysis a practical approach ed. by Wendy A. Bickmore |
| title_full_unstemmed | Chromosome structural analysis a practical approach ed. by Wendy A. Bickmore |
| title_short | Chromosome structural analysis |
| title_sort | chromosome structural analysis a practical approach |
| title_sub | a practical approach |
| topic | Chromatine ram Chromosomes - Laboratory manuals Chromosomes - Manuels de laboratoire ram Genetics - Laboratory manuals Génétique - Manuels de laboratoire ram Transcription génétique ram Chromosomes Laboratory manuals Chromosomes genetics Laboratory Manuals Chromosomes ultrastructure Laboratory Manuals Genetics Laboratory manuals Strukturanalyse (DE-588)4183787-3 gnd Chromosom (DE-588)4010162-9 gnd |
| topic_facet | Chromatine Chromosomes - Laboratory manuals Chromosomes - Manuels de laboratoire Genetics - Laboratory manuals Génétique - Manuels de laboratoire Transcription génétique Chromosomes Laboratory manuals Chromosomes genetics Laboratory Manuals Chromosomes ultrastructure Laboratory Manuals Genetics Laboratory manuals Strukturanalyse Chromosom |
| url | http://bvbr.bib-bvb.de:8991/F?func=service&doc_library=BVB01&local_base=BVB01&doc_number=008572898&sequence=000001&line_number=0001&func_code=DB_RECORDS&service_type=MEDIA |
| volume_link | (DE-604)BV007921321 |
| work_keys_str_mv | AT bickmorewendya chromosomestructuralanalysisapracticalapproach |