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 Rv1597/-:

update plot	correlation	link to info on gene
Rv0893c/-	(cc=0.4394)	info on Rv0893c/-
Rv3469c/mhpE	(cc=0.4028)	info on Rv3469c/mhpE
Rv1676/-	(cc=0.3995)	info on Rv1676/-
Rv2821c/-	(cc=0.3926)	info on Rv2821c/-
Rv3758c/proV	(cc=0.386)	info on Rv3758c/proV
Rv3127/-	(cc=0.3805)	info on Rv3127/-
Rv0495c/-	(cc=0.3782)	info on Rv0495c/-
Rv2769c/PE27	(cc=0.3748)	info on Rv2769c/PE27
Rv1103c/mazE3	(cc=0.3741)	info on Rv1103c/mazE3
Rv2641/cadI	(cc=0.3727)	info on Rv2641/cadI

Correlation of Rv1597/- with Rv1676/-

Normalized LFCs for Rv1597/-:
(description and provenance of datasets)

	Rv1597/-	Rv1676/-
Fe_supp_jason_reseq	0.224	-0.818
low_pH_jason_reseq	0.736	0.34
NO_jason_reseq	0.394	0.533
B6_jason_reseq	0.115	-0.411
MHCII_jason_reseq	0.094	0.103
Isoniazid02	0.589	0.268
Rifampicin4	0.081	0.726
Ethambutol3	-0.178	0.039
Meropenem3	0.737	0.803
Vancomycin16	0.305	0.99
Rv2680_day32	0.675	-0.393
H37Rv_KO_MarP	0.817	1.507
hypoxia_3wks	0.12	0.0
hypoxia_6wks	0.14	0.808
glycerol	0.805	1.181
cholesterol	0.036	-0.118
AJ	-0.328	1.062
Bibs02	1.02	0.138
Bibs02c	-0.08	0.85
BL6	1.072	-0.138
BL6a	-0.491	0.502
BXD01	0.11	-0.695
BXD010	0.315	-0.8
BXD011	-0.041	-0.34
BXD03	0.146	-1.209
BXD04	0.297	-0.508
BXD05	0.05	-0.148
BXD06	0.174	-1.465
BXD07	0.165	-0.865
BXD08	0.391	-1.794
BXD09	0.324	-1.256
CAST	-0.41	0.853
CCcont	0.467	0.285
DS01	0.626	1.381
DS02	0.258	2.105
DS04	0.887	0.753
DS0c	0.738	1.425
GP01	0.336	-0.527
GP02	0.621	0.603
GP0c	0.551	0.16
NOD	-1.009	-0.381
NZO	-0.156	0.587
PWK	-0.566	-0.053
H37Rv_KO_CtpC	0.366	0.309
H37Rv_KO_CtpD	0.472	2.042
H37Rv_KO_Rv1272	1.026	1.968
H37Rv_KO_SugABC	-0.327	1.851
H37Rv_KO_MbtN	0.323	1.596
Trans05	0.36	1.077
macrophage_unactivated	-0.704	-1.502
IL1	-0.273	-2.966
Rapamycin	-0.341	-3.069
Tcell	-0.218	-2.704
GMCSF	-0.309	-2.64
IFNab	-0.614	-3.607
IFNg	-0.329	-3.188
IFNg_GMCSF1	-0.408	-2.13
Rv1432_day32	0.708	1.46
Rv1565c_day32	0.655	0.36
secA2_input	-0.985	-0.568
delta_Rv3594	-0.096	-0.396
delta_Rv3717	0.403	-0.615
delta_Rv3811	0.381	-1.981
delta_Rv0954	0.441	0.194
PonA1	0.631	0.386
EccD1_KO	0.467	1.168
EspI_KO	0.1	1.372
PE35_KO	0.298	1.607
PPE68_KO	-0.698	1.302
glycerol2	0.434	0.581
lignocerate	0.654	0.843
oleate	-0.149	-0.163
phosphatidylcholine	0.723	0.542
acetate	0.46	1.15
glucAc	0.612	1.052
Rv0950ko	0.19	-1.33
Rv1096ko	-0.283	0.075
Rv3684ko	-0.884	0.0
delta_otsA_trehalose	0.585	-0.232