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 Rv3351c/-:

update plot	correlation	link to info on gene
Rv0072/-	(cc=0.4804)	info on Rv0072/-
Rv0305c/PPE6	(cc=0.4753)	info on Rv0305c/PPE6
Rv2665/-	(cc=0.4546)	info on Rv2665/-
Rv1948c/-	(cc=0.4485)	info on Rv1948c/-
Rv3440c/-	(cc=0.4421)	info on Rv3440c/-
Rv1145/mmpL13a	(cc=0.4416)	info on Rv1145/mmpL13a
Rv0832/PE_PGRS12	(cc=0.4345)	info on Rv0832/PE_PGRS12
Rv0194/-	(cc=0.4315)	info on Rv0194/-
Rv0138/-	(cc=0.431)	info on Rv0138/-
Rv2436/rbsK	(cc=0.4277)	info on Rv2436/rbsK

Correlation of Rv3351c/- with Rv0305c/PPE6

Normalized LFCs for Rv3351c/-:
(description and provenance of datasets)

	Rv3351c/-	Rv0305c/PPE6
Fe_supp_jason_reseq	-0.014	0.584
low_pH_jason_reseq	-0.36	-0.248
NO_jason_reseq	-0.108	-0.333
B6_jason_reseq	-0.684	-0.199
MHCII_jason_reseq	0.108	0.274
Isoniazid02	-0.282	-0.374
Rifampicin4	-0.366	0.133
Ethambutol3	0.435	0.022
Meropenem3	0.28	0.488
Vancomycin16	-0.316	-0.255
Rv2680_day32	0.504	-0.065
H37Rv_KO_MarP	0.296	-0.106
hypoxia_3wks	0.187	0.195
hypoxia_6wks	0.263	-0.104
glycerol	0.17	-0.252
cholesterol	0.084	-0.306
AJ	0.588	0.506
Bibs02	0.295	0.13
Bibs02c	0.717	0.247
BL6	0.165	0.258
BL6a	0.283	0.373
BXD01	0.175	0.345
BXD010	-0.481	0.176
BXD011	-0.239	0.352
BXD03	0.167	0.263
BXD04	-0.105	0.162
BXD05	0.408	0.679
BXD06	0.15	0.201
BXD07	0.112	0.145
BXD08	0.673	0.476
BXD09	-0.009	0.364
CAST	0.207	0.611
CCcont	0.125	0.096
DS01	0.144	0.558
DS02	0.63	0.501
DS04	0.63	0.401
DS0c	0.848	0.46
GP01	-0.262	0.546
GP02	0.262	0.609
GP0c	-0.273	0.212
NOD	-0.145	1.365
NZO	0.173	0.4
PWK	0.078	0.166
H37Rv_KO_CtpC	0.318	0.431
H37Rv_KO_CtpD	1.464	1.852
H37Rv_KO_Rv1272	0.539	1.229
H37Rv_KO_SugABC	0.413	1.067
H37Rv_KO_MbtN	0.243	0.798
Trans05	0.063	0.903
macrophage_unactivated	0.038	0.846
IL1	-0.24	-0.208
Rapamycin	-0.181	0.0
Tcell	0.147	0.925
GMCSF	0.293	0.275
IFNab	0.426	-0.151
IFNg	0.088	0.561
IFNg_GMCSF1	0.167	0.06
Rv1432_day32	0.445	0.026
Rv1565c_day32	0.028	-0.13
secA2_input	-0.319	-0.621
delta_Rv3594	0.314	0.0
delta_Rv3717	0.033	-0.39
delta_Rv3811	0.226	-0.097
delta_Rv0954	-0.277	-0.465
PonA1	0.035	0.045
EccD1_KO	-0.283	-0.743
EspI_KO	0.108	-0.627
PE35_KO	-0.055	-0.642
PPE68_KO	0.035	-0.598
glycerol2	0.391	-0.136
lignocerate	0.431	-0.078
oleate	0.449	-0.138
phosphatidylcholine	0.286	0.011
acetate	-0.086	-0.474
glucAc	-0.171	-0.345
Rv0950ko	0.25	0.911
Rv1096ko	-0.347	-0.208
Rv3684ko	0.0	0.098
delta_otsA_trehalose	-0.698	-0.191