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 Rv1521/fadD25:

update plot	correlation	link to info on gene
Rv1918c/PPE35	(cc=0.7076)	info on Rv1918c/PPE35
Rv2735c/-	(cc=0.6806)	info on Rv2735c/-
Rv3116/moeB2	(cc=0.6674)	info on Rv3116/moeB2
Rv1984c/cfp21	(cc=0.6673)	info on Rv1984c/cfp21
Rv1548c/PPE21	(cc=0.6373)	info on Rv1548c/PPE21
Rv3125c/PPE49	(cc=0.6359)	info on Rv3125c/PPE49
Rv1059/-	(cc=0.628)	info on Rv1059/-
Rv1504c/-	(cc=0.6185)	info on Rv1504c/-
Rv1551/plsB1	(cc=0.6174)	info on Rv1551/plsB1
Rv1949c/-	(cc=0.5944)	info on Rv1949c/-

Correlation of Rv1521/fadD25 with Rv1949c/-

Normalized LFCs for Rv1521/fadD25:
(description and provenance of datasets)

	Rv1521/fadD25	Rv1949c/-
Fe_supp_jason_reseq	1.408	0.311
low_pH_jason_reseq	-0.495	-0.689
NO_jason_reseq	0.0	0.239
B6_jason_reseq	0.444	-0.692
MHCII_jason_reseq	0.125	-0.969
Isoniazid02	-0.183	-0.113
Rifampicin4	0.133	-0.011
Ethambutol3	0.322	0.047
Meropenem3	0.081	0.629
Vancomycin16	0.379	-0.377
Rv2680_day32	0.161	0.057
H37Rv_KO_MarP	0.0	0.48
hypoxia_3wks	0.698	0.303
hypoxia_6wks	0.576	-0.547
glycerol	-0.404	-0.888
cholesterol	-0.35	0.519
AJ	0.274	-0.044
Bibs02	0.539	0.258
Bibs02c	-0.537	-0.341
BL6	0.492	-0.195
BL6a	0.408	-0.142
BXD01	0.906	0.438
BXD010	1.149	-0.041
BXD011	0.802	0.194
BXD03	1.018	0.242
BXD04	1.19	0.926
BXD05	0.952	0.283
BXD06	0.737	0.033
BXD07	0.688	0.226
BXD08	1.121	0.742
BXD09	0.668	0.274
CAST	0.052	0.085
CCcont	0.478	-0.573
DS01	0.027	0.074
DS02	0.0	0.041
DS04	-0.045	-0.675
DS0c	-0.05	-0.402
GP01	0.634	0.819
GP02	1.092	0.762
GP0c	0.726	-0.221
NOD	0.524	-0.072
NZO	-0.023	0.038
PWK	-0.59	-0.013
H37Rv_KO_CtpC	1.032	0.887
H37Rv_KO_CtpD	1.28	0.158
H37Rv_KO_Rv1272	1.45	0.568
H37Rv_KO_SugABC	0.767	0.301
H37Rv_KO_MbtN	1.982	0.92
Trans05	1.332	1.347
macrophage_unactivated	0.505	0.139
IL1	0.552	-0.792
Rapamycin	0.703	-0.344
Tcell	0.404	-0.15
GMCSF	0.129	0.364
IFNab	0.72	-0.369
IFNg	0.476	0.024
IFNg_GMCSF1	0.531	-0.264
Rv1432_day32	0.169	0.068
Rv1565c_day32	0.313	0.019
secA2_input	-0.762	-0.753
delta_Rv3594	0.515	0.044
delta_Rv3717	-0.225	-0.059
delta_Rv3811	0.0	-0.123
delta_Rv0954	-0.127	-0.69
PonA1	-0.18	-0.125
EccD1_KO	0.033	0.158
EspI_KO	0.314	-0.08
PE35_KO	0.347	0.099
PPE68_KO	0.65	0.067
glycerol2	-0.149	0.115
lignocerate	-0.496	-0.438
oleate	0.067	0.644
phosphatidylcholine	-0.045	0.409
acetate	-0.308	-1.159
glucAc	-0.773	-1.522
Rv0950ko	0.193	0.075
Rv1096ko	-1.194	-0.995
Rv3684ko	-0.793	-0.305
delta_otsA_trehalose	0.144	-0.338