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 Rv2436/rbsK

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

	Rv3351c/-	Rv2436/rbsK
Fe_supp_jason_reseq	-0.014	0.458
low_pH_jason_reseq	-0.36	0.636
NO_jason_reseq	-0.108	0.344
B6_jason_reseq	-0.684	-0.727
MHCII_jason_reseq	0.108	-1.484
Isoniazid02	-0.282	-0.838
Rifampicin4	-0.366	0.72
Ethambutol3	0.435	-1.026
Meropenem3	0.28	-0.564
Vancomycin16	-0.316	-0.745
Rv2680_day32	0.504	1.263
H37Rv_KO_MarP	0.296	0.095
hypoxia_3wks	0.187	0.0
hypoxia_6wks	0.263	-1.723
glycerol	0.17	-0.394
cholesterol	0.084	0.897
AJ	0.588	0.425
Bibs02	0.295	0.868
Bibs02c	0.717	1.716
BL6	0.165	-0.179
BL6a	0.283	0.672
BXD01	0.175	0.523
BXD010	-0.481	-0.15
BXD011	-0.239	0.028
BXD03	0.167	0.321
BXD04	-0.105	-0.028
BXD05	0.408	0.247
BXD06	0.15	0.193
BXD07	0.112	0.823
BXD08	0.673	0.756
BXD09	-0.009	-0.71
CAST	0.207	-0.105
CCcont	0.125	1.24
DS01	0.144	0.296
DS02	0.63	0.807
DS04	0.63	0.319
DS0c	0.848	1.948
GP01	-0.262	-1.498
GP02	0.262	0.621
GP0c	-0.273	-0.971
NOD	-0.145	0.0
NZO	0.173	-0.936
PWK	0.078	-0.604
H37Rv_KO_CtpC	0.318	1.727
H37Rv_KO_CtpD	1.464	1.357
H37Rv_KO_Rv1272	0.539	1.778
H37Rv_KO_SugABC	0.413	0.484
H37Rv_KO_MbtN	0.243	0.366
Trans05	0.063	2.226
macrophage_unactivated	0.038	1.521
IL1	-0.24	1.13
Rapamycin	-0.181	0.322
Tcell	0.147	0.736
GMCSF	0.293	2.141
IFNab	0.426	0.955
IFNg	0.088	0.142
IFNg_GMCSF1	0.167	0.562
Rv1432_day32	0.445	0.0
Rv1565c_day32	0.028	0.294
secA2_input	-0.319	-1.924
delta_Rv3594	0.314	0.525
delta_Rv3717	0.033	-0.391
delta_Rv3811	0.226	0.433
delta_Rv0954	-0.277	-1.914
PonA1	0.035	-0.627
EccD1_KO	-0.283	1.388
EspI_KO	0.108	1.614
PE35_KO	-0.055	1.873
PPE68_KO	0.035	1.747
glycerol2	0.391	0.96
lignocerate	0.431	0.856
oleate	0.449	0.0
phosphatidylcholine	0.286	0.696
acetate	-0.086	1.139
glucAc	-0.171	0.762
Rv0950ko	0.25	-0.736
Rv1096ko	-0.347	-0.875
Rv3684ko	0.0	-0.187
delta_otsA_trehalose	-0.698	-2.417