TnSeqCorr

• These are correlations of TnSeq responses across 82 experimental conditions.
• LFCs (log2-fold-changes) were computed for each gene in each condition relative to a relevant control condition (e.g. H37Rv grown on 7H9).
• The LFCs were normalized by dividing by the standard deviation for each condition. (so roughly, |LFC|>2 are the outliers, i.e. tails of the distribution)
• Note that essential genes often have LFCs around 0.
• Data for some genes is not available if they have less than 3 TA sites, or the dynamic range of LFCs is less than 2.0 across all conditions. (This is the case for many essential genes.)
• 'leverage' on each plot is a statistical score that indicates how much the regression is influenced by a few outlier points; the traditional threshold is indicated on the plots (3p/n, which is about 0.07 for this dataset), but in practice, cases with leverage > ~0.2 seem to be the least reliable (most misleading) correlation coefficients.

Top 10 genes with highest correlation to Rv0961/-:
Show top 50 genes. Show bottom 10 genes with LOWEST correlation.

Most correlated genes.

update plot	correlation	link to info on gene
Rv0849/-	(cc=0.562)	info on Rv0849/-
Rv0611c/-	(cc=0.5296)	info on Rv0611c/-
Rv2322c/rocD1	(cc=0.4872)	info on Rv2322c/rocD1
Rv1945/-	(cc=0.4853)	info on Rv1945/-
Rv0754/PE_PGRS11	(cc=0.472)	info on Rv0754/PE_PGRS11
Rv2489c/-	(cc=0.471)	info on Rv2489c/-
Rv3638/-	(cc=0.4608)	info on Rv3638/-
Rv0953c/-	(cc=0.4566)	info on Rv0953c/-
Rv1834/lipZ	(cc=0.4445)	info on Rv1834/lipZ
Rv1148c/-	(cc=0.4393)	info on Rv1148c/-

Correlation of Rv0961/- with Rv0849/-

Normalized LFCs for Rv0961/-:
(description and provenance of datasets)

Comparison of LFCs between selected condtions.

condition	Rv0961/-	Rv0849/-
Fe_supp_jason_reseq	-1.44	-0.529
low_pH_jason_reseq	-1.327	-0.607
NO_jason_reseq	0.252	-0.202
B6_jason_reseq	0.284	0.136
MHCII_jason_reseq	-0.008	0.283
Isoniazid02	-0.93	-0.499
Rifampicin4	-1.248	0.154
Ethambutol3	-0.693	-0.733
Meropenem3	-1.041	-0.54
Vancomycin16	-0.517	0.093
Rv2680_day32	2.182	0.302
H37Rv_KO_MarP	0.086	0.71
hypoxia_3wks	-0.247	-0.1
hypoxia_6wks	0.376	0.271
glycerol	0.145	0.253
cholesterol	-0.027	0.454
AJ	0.297	0.706
Bibs02	-0.401	0.501
Bibs02c	-0.014	0.605
BL6	-0.686	-1.395
BL6a	-0.709	-0.253
BXD01	-0.066	-0.278
BXD010	-1.218	-0.222
BXD011	-0.753	-0.711
BXD03	-1.092	-0.867
BXD04	-0.919	0.056
BXD05	-0.984	-0.707
BXD06	-0.388	-0.629
BXD07	-0.689	-0.528
BXD08	-0.175	-0.67
BXD09	-1.253	-0.692
CAST	0.44	0.951
CCcont	-0.899	-0.736
DS01	0.513	0.559
DS02	-0.096	0.662
DS04	2.204	1.137
DS0c	0.699	0.826
GP01	1.139	0.202
GP02	0.159	0.074
GP0c	-0.189	-0.089
NOD	-0.129	0.835
NZO	0.351	0.104
PWK	-0.05	-0.178
H37Rv_KO_CtpC	0.199	-0.269
H37Rv_KO_CtpD	0.696	0.173
H37Rv_KO_Rv1272	-1.431	-0.289
H37Rv_KO_SugABC	0.426	1.04
H37Rv_KO_MbtN	-0.523	0.079
Trans05	-0.296	0.282
macrophage_unactivated	-0.439	-1.076
IL1	-0.172	-1.068
Rapamycin	-0.301	-1.289
Tcell	0.062	-0.691
GMCSF	-0.259	-0.9
IFNab	-1.255	-0.384
IFNg	-0.847	-0.476
IFNg_GMCSF1	0.817	0.0
Rv1432_day32	-0.18	-0.262
Rv1565c_day32	1.417	0.069
secA2_input	-0.081	-0.817
delta_Rv3594	-0.563	-0.099
delta_Rv3717	-0.424	-0.474
delta_Rv3811	-1.753	-0.561
delta_Rv0954	1.096	0.793
PonA1	-0.321	0.259
EccD1_KO	0.049	0.243
EspI_KO	-0.043	0.565
PE35_KO	0.169	0.84
PPE68_KO	0.739	0.506
glycerol2	0.391	0.0
lignocerate	-0.14	0.122
oleate	0.604	0.072
phosphatidylcholine	0.161	0.189
acetate	-0.944	-0.022
glucAc	-0.668	-0.082
Rv0950ko	-0.133	0.121
Rv1096ko	0.193	0.814
Rv3684ko	-1.117	0.174
delta_otsA_trehalose	0.722	0.942