Additional file 8 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

Open link

Publication date

September 2022

DOI

10.6084/m9.figshare.21185687.v1

Abstract

Additional file 8: Supplementary Table 3. Specific marker genes of control donor BM cells. BM, bone marrow

Extracted data

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Data Protection

Additional file 8 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

Open link

Publication date

September 2022

DOI

10.6084/m9.figshare.21185687.v1

Abstract

Additional file 8: Supplementary Table 3. Specific marker genes of control donor BM cells. BM, bone marrow

Extracted data

Nazleen Lobo (623561)
Craig Gedye (3431204)
Anthony Apostoli (3431207)
Kevin Brown (73625)
Joshua Paterson (623556)
Natalie Stickle (3431198)
Michael Robinette (3431201)
Neil Fleshner (361896)
Robert Hamilton (156923)
Girish Kulkarni (491239)
Alexandre Zlotta (3423419)
Andrew Evans (16657)
Antonio Finelli (34854)
Jason Moffat (259980)
Michael Jewett (414146)
Laurie Ailles (3431195)

July 2016

Differentially expressed genes between matched tumor tissue and VHLmut cultures. (XLSX 1.05 mb

Supplementary Figure S13 from Multiomic Mapping of Acquired Chromosome 1 Copy-Number and Structural Variants to Identify Therapeutic Vulnerabilities in Multiple Myeloma

Eileen M. Boyle (15015425)
Patrick Blaney (15046680)
James H. Stoeckle (16797554)
Yubao Wang (16797557)
Hussein Ghamlouch (9578534)
Dylan Gagler (16797560)
Marc Braunstein (16797563)
Louis Williams (16797566)
Avital Tenenbaum (16797569)
Ariel Siegel (16797572)
Xiaoyi Chen (16797575)
Gaurav Varma (16797578)
Jason Avigan (16797581)
Alexander Li (16797584)
Monica Jinsi (16797587)
David Kaminetzsky (16797590)
Arnaldo Arbini (16797593)
Lydia Montes (16797596)
Jill Corre (15050723)
Even H. Rustad (15022205)
Ola Landgren (15382298)
Francesco Maura (15022226)
Brian A. Walker (9218335)
Michael Bauer (16797599)
Benedetto Bruno (16797602)
Aristotelis Tsirigos (14946172)
Faith E. Davies (15129426)
Gareth J. Morgan (15031478)

August 2023

CRISPR dependencies on chromosome 1. Nineteen myeloma cell lines and 15 random non-myeloma cell line...

Additional file 3: Table S3. of Melanoma genome evolution across species

Emily Kansler (3724894)
Akanksha Verma (3553664)
Erin Langdon (3724897)
Theresa Simon-Vermot (3724900)
Alexandra Yin (3724903)
William Lee (256063)
Marc Attiyeh (3724906)
Olivier Elemento (7617)
Richard White (138360)

February 2017

ZMEL1 MiSeq validation calls. This file contains all of the mutation calls for the MiSeq validation ...

Additional file 7 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 7: Supplementary Table 2. The known marker genes used for annotating cell clusters

Additional file 11 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 11: Supplementary Table 6. Characterization of specific marker genes for type I and ...

Additional file 10 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 10: Supplementary Table 5. Specific marker genes of BM tumor microenvironment cells ...

Additional file 6 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 6: Supplementary Table 1. Demographic, clinical, molecular, and diagnostic informati...

Additional file 9 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 9: Supplementary Table 4. Specific marker genes of malignant plasma cell subclones i...

Additional file 12 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 12: Supplementary Table 7. Relative abundance estimation and typing of type I and IX...

Additional file 4 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 4: Supplementary Fig. 4. Cellular heterogeneity in the myeloma of MM patients. (A) H...

Additional file 5 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 5: Supplementary Fig. 5. Expression patterns of immune cell subpopulations in MM. (A...

Additional file 3 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 3: Supplementary Fig. 3. Exploring malignant origins from the perspective of clonal ...

Additional file 1 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 1: Supplementary Fig. 1. BM intercellular communication events in patients with NDMM...

Additional file 2 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 2: Supplementary Fig. 2. Nanopore sequencing combined with single-cell transcriptome...

Nazleen Lobo (623561)
Craig Gedye (3431204)
Anthony Apostoli (3431207)
Kevin Brown (73625)
Joshua Paterson (623556)
Natalie Stickle (3431198)
Michael Robinette (3431201)
Neil Fleshner (361896)
Robert Hamilton (156923)
Girish Kulkarni (491239)
Alexandre Zlotta (3423419)
Andrew Evans (16657)
Antonio Finelli (34854)
Jason Moffat (259980)
Michael Jewett (414146)
Laurie Ailles (3431195)

July 2016

Differentially expressed genes between matched tumor tissue and VHLmut cultures. (XLSX 1.05 mb

Supplementary Figure S13 from Multiomic Mapping of Acquired Chromosome 1 Copy-Number and Structural Variants to Identify Therapeutic Vulnerabilities in Multiple Myeloma

Eileen M. Boyle (15015425)
Patrick Blaney (15046680)
James H. Stoeckle (16797554)
Yubao Wang (16797557)
Hussein Ghamlouch (9578534)
Dylan Gagler (16797560)
Marc Braunstein (16797563)
Louis Williams (16797566)
Avital Tenenbaum (16797569)
Ariel Siegel (16797572)
Xiaoyi Chen (16797575)
Gaurav Varma (16797578)
Jason Avigan (16797581)
Alexander Li (16797584)
Monica Jinsi (16797587)
David Kaminetzsky (16797590)
Arnaldo Arbini (16797593)
Lydia Montes (16797596)
Jill Corre (15050723)
Even H. Rustad (15022205)
Ola Landgren (15382298)
Francesco Maura (15022226)
Brian A. Walker (9218335)
Michael Bauer (16797599)
Benedetto Bruno (16797602)
Aristotelis Tsirigos (14946172)
Faith E. Davies (15129426)
Gareth J. Morgan (15031478)

August 2023

CRISPR dependencies on chromosome 1. Nineteen myeloma cell lines and 15 random non-myeloma cell line...

Additional file 3: Table S3. of Melanoma genome evolution across species

Emily Kansler (3724894)
Akanksha Verma (3553664)
Erin Langdon (3724897)
Theresa Simon-Vermot (3724900)
Alexandra Yin (3724903)
William Lee (256063)
Marc Attiyeh (3724906)
Olivier Elemento (7617)
Richard White (138360)

February 2017

ZMEL1 MiSeq validation calls. This file contains all of the mutation calls for the MiSeq validation ...

Additional file 7 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 7: Supplementary Table 2. The known marker genes used for annotating cell clusters

Additional file 11 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 11: Supplementary Table 6. Characterization of specific marker genes for type I and ...

Additional file 10 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 10: Supplementary Table 5. Specific marker genes of BM tumor microenvironment cells ...

Additional file 6 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 6: Supplementary Table 1. Demographic, clinical, molecular, and diagnostic informati...

Additional file 9 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 9: Supplementary Table 4. Specific marker genes of malignant plasma cell subclones i...

Additional file 12 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 12: Supplementary Table 7. Relative abundance estimation and typing of type I and IX...

Additional file 4 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 4: Supplementary Fig. 4. Cellular heterogeneity in the myeloma of MM patients. (A) H...

Additional file 5 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 5: Supplementary Fig. 5. Expression patterns of immune cell subpopulations in MM. (A...

Additional file 3 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 3: Supplementary Fig. 3. Exploring malignant origins from the perspective of clonal ...

Additional file 1 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 1: Supplementary Fig. 1. BM intercellular communication events in patients with NDMM...

Additional file 2 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Yuanzheng Liang (13842467)
Haiyan He (1939822)
Weida Wang (772695)
Henan Wang (8850623)
Shaowen Mo (12755084)
Ruiying Fu (11605603)
Xindi Liu (12252509)
Qiong Song (4959706)
Zhongjun Xia (3202539)
Liang Wang (23021)

September 2022

Additional file 2: Supplementary Fig. 2. Nanopore sequencing combined with single-cell transcriptome...

Nazleen Lobo (623561)
Craig Gedye (3431204)
Anthony Apostoli (3431207)
Kevin Brown (73625)
Joshua Paterson (623556)
Natalie Stickle (3431198)
Michael Robinette (3431201)
Neil Fleshner (361896)
Robert Hamilton (156923)
Girish Kulkarni (491239)
Alexandre Zlotta (3423419)
Andrew Evans (16657)
Antonio Finelli (34854)
Jason Moffat (259980)
Michael Jewett (414146)
Laurie Ailles (3431195)

July 2016

Differentially expressed genes between matched tumor tissue and VHLmut cultures. (XLSX 1.05 mb

Supplementary Figure S13 from Multiomic Mapping of Acquired Chromosome 1 Copy-Number and Structural Variants to Identify Therapeutic Vulnerabilities in Multiple Myeloma

Eileen M. Boyle (15015425)
Patrick Blaney (15046680)
James H. Stoeckle (16797554)
Yubao Wang (16797557)
Hussein Ghamlouch (9578534)
Dylan Gagler (16797560)
Marc Braunstein (16797563)
Louis Williams (16797566)
Avital Tenenbaum (16797569)
Ariel Siegel (16797572)
Xiaoyi Chen (16797575)
Gaurav Varma (16797578)
Jason Avigan (16797581)
Alexander Li (16797584)
Monica Jinsi (16797587)
David Kaminetzsky (16797590)
Arnaldo Arbini (16797593)
Lydia Montes (16797596)
Jill Corre (15050723)
Even H. Rustad (15022205)
Ola Landgren (15382298)
Francesco Maura (15022226)
Brian A. Walker (9218335)
Michael Bauer (16797599)
Benedetto Bruno (16797602)
Aristotelis Tsirigos (14946172)
Faith E. Davies (15129426)
Gareth J. Morgan (15031478)

August 2023

CRISPR dependencies on chromosome 1. Nineteen myeloma cell lines and 15 random non-myeloma cell line...

Additional file 3: Table S3. of Melanoma genome evolution across species

Emily Kansler (3724894)
Akanksha Verma (3553664)
Erin Langdon (3724897)
Theresa Simon-Vermot (3724900)
Alexandra Yin (3724903)
William Lee (256063)
Marc Attiyeh (3724906)
Olivier Elemento (7617)
Richard White (138360)

February 2017

ZMEL1 MiSeq validation calls. This file contains all of the mutation calls for the MiSeq validation ...

Additional file 8 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Abstract

Extracted data

Additional file 8 of Malignant clonal evolution drives multiple myeloma cellular ecological diversity and microenvironment reprogramming

Abstract

Extracted data

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