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Gene: CRY1 |
Gene summary for CRY1 |
Gene summary. |
Gene information | Species | Human | Gene symbol | CRY1 | Gene ID | 1407 |
Gene name | cryptochrome circadian regulator 1 | |
Gene Alias | DSPD | |
Cytomap | 12q23.3 | |
Gene Type | protein-coding | GO ID | GO:0000075 | UniProtAcc | A2I2P0 |
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Malignant transformation analysis |
Identification of the aberrant gene expression in precancerous and cancerous lesions by comparing the gene expression of stem-like cells in diseased tissues with normal stem cells |
Malignant transformation involving gene list. |
Entrez ID | Symbol | Replicates | Species | Organ | Tissue | Adj P-value | Log2FC | Malignancy |
1407 | CRY1 | AEH-subject1 | Human | Endometrium | AEH | 1.16e-36 | 7.36e-01 | -0.3059 |
1407 | CRY1 | AEH-subject2 | Human | Endometrium | AEH | 5.73e-06 | 2.87e-01 | -0.2525 |
1407 | CRY1 | AEH-subject3 | Human | Endometrium | AEH | 3.10e-15 | 4.55e-01 | -0.2576 |
1407 | CRY1 | AEH-subject4 | Human | Endometrium | AEH | 1.67e-14 | 5.27e-01 | -0.2657 |
1407 | CRY1 | AEH-subject5 | Human | Endometrium | AEH | 1.85e-19 | 4.91e-01 | -0.2953 |
1407 | CRY1 | EEC-subject1 | Human | Endometrium | EEC | 5.53e-24 | 6.47e-01 | -0.2682 |
1407 | CRY1 | EEC-subject2 | Human | Endometrium | EEC | 3.07e-06 | 2.90e-01 | -0.2607 |
1407 | CRY1 | EEC-subject4 | Human | Endometrium | EEC | 8.05e-08 | 3.16e-01 | -0.2571 |
1407 | CRY1 | EEC-subject5 | Human | Endometrium | EEC | 2.81e-09 | 3.16e-01 | -0.249 |
1407 | CRY1 | GSM5276934 | Human | Endometrium | EEC | 7.70e-06 | 2.44e-01 | -0.0913 |
1407 | CRY1 | GSM5276937 | Human | Endometrium | EEC | 8.10e-07 | 2.88e-01 | -0.0897 |
1407 | CRY1 | GSM6177620_NYU_UCEC1_lib2_lib2 | Human | Endometrium | EEC | 1.42e-05 | 1.12e-02 | -0.1875 |
1407 | CRY1 | GSM6177622_NYU_UCEC3_lib2_lib2 | Human | Endometrium | EEC | 1.15e-03 | 9.28e-02 | -0.1916 |
1407 | CRY1 | LZE4T | Human | Esophagus | ESCC | 7.25e-11 | 2.31e-01 | 0.0811 |
1407 | CRY1 | LZE7T | Human | Esophagus | ESCC | 1.81e-06 | 2.21e-01 | 0.0667 |
1407 | CRY1 | LZE8T | Human | Esophagus | ESCC | 1.36e-04 | 6.47e-02 | 0.067 |
1407 | CRY1 | LZE22T | Human | Esophagus | ESCC | 2.23e-03 | 2.22e-01 | 0.068 |
1407 | CRY1 | LZE24T | Human | Esophagus | ESCC | 7.35e-14 | 3.54e-01 | 0.0596 |
1407 | CRY1 | LZE21T | Human | Esophagus | ESCC | 3.40e-02 | 1.86e-01 | 0.0655 |
1407 | CRY1 | LZE6T | Human | Esophagus | ESCC | 8.82e-04 | 5.83e-02 | 0.0845 |
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Transcriptomic changes along malignancy continuum. |
∗log2FC in expression of this searched gene in stem-like cells from each diseased tissue sample relative to stem-like cells in normal samples in each tissue plotted against the malignancy continuum. Samples are colored based on if they are from different disease stage. |
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Malignant transformation related pathway analysis |
Find out the enriched GO biological processes and KEGG pathways involved in transition from healthy to precancer to cancer |
Figure of enriched GO biological processes. |
Tissue | Disease Stage | Enriched GO biological Processes |
Colorectum | AD | |
Colorectum | SER | |
Colorectum | MSS | |
Colorectum | MSI-H | |
Colorectum | FAP |
∗Top 15 enriched GO BP terms are showed in the bar plot of each disease state in each tissue. Each row represents a significant GO biological process which is colored according to the -log10(p.adjust). |
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Enriched GO biological processes. |
GO ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | Count |
GO:003286818 | Esophagus | ESCC | response to insulin | 156/8552 | 264/18723 | 7.21e-06 | 7.20e-05 | 156 |
GO:003051819 | Esophagus | ESCC | intracellular steroid hormone receptor signaling pathway | 76/8552 | 116/18723 | 1.25e-05 | 1.15e-04 | 76 |
GO:004340119 | Esophagus | ESCC | steroid hormone mediated signaling pathway | 87/8552 | 136/18723 | 1.25e-05 | 1.15e-04 | 87 |
GO:00060069 | Esophagus | ESCC | glucose metabolic process | 119/8552 | 196/18723 | 1.51e-05 | 1.36e-04 | 119 |
GO:000941611 | Esophagus | ESCC | response to light stimulus | 183/8552 | 320/18723 | 2.03e-05 | 1.76e-04 | 183 |
GO:003292215 | Esophagus | ESCC | circadian regulation of gene expression | 48/8552 | 68/18723 | 2.76e-05 | 2.30e-04 | 48 |
GO:00199155 | Esophagus | ESCC | lipid storage | 58/8552 | 87/18723 | 6.15e-05 | 4.72e-04 | 58 |
GO:00331438 | Esophagus | ESCC | regulation of intracellular steroid hormone receptor signaling pathway | 50/8552 | 74/18723 | 1.16e-04 | 8.04e-04 | 50 |
GO:00442626 | Esophagus | ESCC | cellular carbohydrate metabolic process | 160/8552 | 283/18723 | 1.43e-04 | 9.66e-04 | 160 |
GO:00160514 | Esophagus | ESCC | carbohydrate biosynthetic process | 117/8552 | 202/18723 | 2.96e-04 | 1.79e-03 | 117 |
GO:00620129 | Esophagus | ESCC | regulation of small molecule metabolic process | 184/8552 | 334/18723 | 3.11e-04 | 1.85e-03 | 184 |
GO:00714821 | Esophagus | ESCC | cellular response to light stimulus | 75/8552 | 123/18723 | 4.45e-04 | 2.50e-03 | 75 |
GO:004851118 | Esophagus | ESCC | rhythmic process | 164/8552 | 298/18723 | 6.80e-04 | 3.57e-03 | 164 |
GO:000762319 | Esophagus | ESCC | circadian rhythm | 119/8552 | 210/18723 | 8.47e-04 | 4.36e-03 | 119 |
GO:00463643 | Esophagus | ESCC | monosaccharide biosynthetic process | 52/8552 | 82/18723 | 9.03e-04 | 4.61e-03 | 52 |
GO:00109065 | Esophagus | ESCC | regulation of glucose metabolic process | 71/8552 | 119/18723 | 1.46e-03 | 6.92e-03 | 71 |
GO:19019762 | Esophagus | ESCC | regulation of cell cycle checkpoint | 24/8552 | 33/18723 | 1.50e-03 | 7.06e-03 | 24 |
GO:00193193 | Esophagus | ESCC | hexose biosynthetic process | 49/8552 | 78/18723 | 1.69e-03 | 7.81e-03 | 49 |
GO:00061096 | Esophagus | ESCC | regulation of carbohydrate metabolic process | 101/8552 | 178/18723 | 1.89e-03 | 8.52e-03 | 101 |
GO:000975516 | Esophagus | ESCC | hormone-mediated signaling pathway | 106/8552 | 190/18723 | 3.13e-03 | 1.30e-02 | 106 |
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Enriched KEGG pathways. |
Pathway ID | Tissue | Disease Stage | Description | Gene Ratio | Bg Ratio | pvalue | p.adjust | qvalue | Count |
hsa047105 | Esophagus | ESCC | Circadian rhythm | 24/4205 | 34/8465 | 1.09e-02 | 2.51e-02 | 1.29e-02 | 24 |
hsa0471012 | Esophagus | ESCC | Circadian rhythm | 24/4205 | 34/8465 | 1.09e-02 | 2.51e-02 | 1.29e-02 | 24 |
hsa04710 | Lung | IAC | Circadian rhythm | 10/1053 | 34/8465 | 6.70e-03 | 2.76e-02 | 1.83e-02 | 10 |
hsa047101 | Lung | IAC | Circadian rhythm | 10/1053 | 34/8465 | 6.70e-03 | 2.76e-02 | 1.83e-02 | 10 |
hsa047102 | Lung | AIS | Circadian rhythm | 11/961 | 34/8465 | 9.22e-04 | 7.11e-03 | 4.55e-03 | 11 |
hsa047103 | Lung | AIS | Circadian rhythm | 11/961 | 34/8465 | 9.22e-04 | 7.11e-03 | 4.55e-03 | 11 |
hsa047104 | Prostate | BPH | Circadian rhythm | 15/1718 | 34/8465 | 1.40e-03 | 5.85e-03 | 3.62e-03 | 15 |
hsa0471011 | Prostate | BPH | Circadian rhythm | 15/1718 | 34/8465 | 1.40e-03 | 5.85e-03 | 3.62e-03 | 15 |
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Cell-cell communication analysis |
Identification of potential cell-cell interactions between two cell types and their ligand-receptor pairs for different disease states |
Ligand | Receptor | LRpair | Pathway | Tissue | Disease Stage |
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Single-cell gene regulatory network inference analysis |
Find out the significant the regulons (TFs) and the target genes of each regulon across cell types for different disease states |
TF | Cell Type | Tissue | Disease Stage | Target Gene | RSS | Regulon Activity |
∗The dot plots of a searched regulon are shown for all cell subpopulations in each disease state of each tissue based on the regulon specific score inferred using pySCENIC and by calculating the average expression. |
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Somatic mutation of malignant transformation related genes |
Annotation of somatic variants for genes involved in malignant transformation |
Hugo Symbol | Variant Class | Variant Classification | dbSNP RS | HGVSc | HGVSp | HGVSp Short | SWISSPROT | BIOTYPE | SIFT | PolyPhen | Tumor Sample Barcode | Tissue | Histology | Sex | Age | Stage | Therapy Types | Drugs | Outcome |
CRY1 | SNV | Missense_Mutation | c.1344N>T | p.Trp448Cys | p.W448C | Q16526 | protein_coding | deleterious(0) | probably_damaging(1) | TCGA-A8-A07R-01 | Breast | breast invasive carcinoma | Female | >=65 | III/IV | Ancillary | zoledronic | SD | |
CRY1 | insertion | Frame_Shift_Ins | novel | c.197_198insCATGGAAATGCCCA | p.Arg67MetfsTer8 | p.R67Mfs*8 | Q16526 | protein_coding | TCGA-A8-A0A4-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | CR | ||
CRY1 | insertion | Frame_Shift_Ins | novel | c.195_196insACAACTAG | p.Leu66ThrfsTer7 | p.L66Tfs*7 | Q16526 | protein_coding | TCGA-A8-A0A4-01 | Breast | breast invasive carcinoma | Female | >=65 | I/II | Hormone Therapy | tamoxiphen | CR | ||
CRY1 | SNV | Missense_Mutation | c.1452G>A | p.Met484Ile | p.M484I | Q16526 | protein_coding | tolerated(0.05) | possibly_damaging(0.49) | TCGA-EK-A2H0-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | CR | |
CRY1 | SNV | Missense_Mutation | rs149558160 | c.767N>A | p.Arg256Gln | p.R256Q | Q16526 | protein_coding | deleterious(0) | probably_damaging(0.941) | TCGA-MA-AA3X-01 | Cervix | cervical & endocervical cancer | Female | <65 | III/IV | Chemotherapy | cisplatin | CR |
CRY1 | SNV | Missense_Mutation | c.1452G>A | p.Met484Ile | p.M484I | Q16526 | protein_coding | tolerated(0.05) | possibly_damaging(0.49) | TCGA-ZJ-A8QQ-01 | Cervix | cervical & endocervical cancer | Female | <65 | I/II | Chemotherapy | cisplatin | SD | |
CRY1 | SNV | Missense_Mutation | rs770965692 | c.1249G>A | p.Gly417Ser | p.G417S | Q16526 | protein_coding | tolerated(0.13) | benign(0.001) | TCGA-AA-3492-01 | Colorectum | colon adenocarcinoma | Female | >=65 | I/II | Unknown | Unknown | SD |
CRY1 | SNV | Missense_Mutation | rs749506981 | c.1042C>T | p.Arg348Cys | p.R348C | Q16526 | protein_coding | deleterious(0) | possibly_damaging(0.606) | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD |
CRY1 | SNV | Missense_Mutation | c.722C>T | p.Ala241Val | p.A241V | Q16526 | protein_coding | deleterious(0.03) | benign(0.42) | TCGA-AA-3672-01 | Colorectum | colon adenocarcinoma | Female | >=65 | III/IV | Unknown | Unknown | SD | |
CRY1 | SNV | Missense_Mutation | novel | c.380N>T | p.Arg127Ile | p.R127I | Q16526 | protein_coding | deleterious(0.03) | benign(0.158) | TCGA-AA-A00N-01 | Colorectum | colon adenocarcinoma | Male | >=65 | I/II | Unknown | Unknown | PD |
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Related drugs of malignant transformation related genes |
Identification of chemicals and drugs interact with genes involved in malignant transfromation |
(DGIdb 4.0) |
Entrez ID | Symbol | Category | Interaction Types | Drug Claim Name | Drug Name | PMIDs |
1407 | CRY1 | NUCLEAR HORMONE RECEPTOR, TRANSCRIPTION FACTOR | 252166810 | |||
1407 | CRY1 | NUCLEAR HORMONE RECEPTOR, TRANSCRIPTION FACTOR | lithium | LITHIUM |
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