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 Rv2874/dipZ:

update plot	correlation	link to info on gene
Rv2631/-	(cc=0.5365)	info on Rv2631/-
Rv1730c/-	(cc=0.5344)	info on Rv1730c/-
Rv2020c/-	(cc=0.5181)	info on Rv2020c/-
Rv1255c/-	(cc=0.5171)	info on Rv1255c/-
Rv1123c/bpoB	(cc=0.4985)	info on Rv1123c/bpoB
Rv3136A/-	(cc=0.4982)	info on Rv3136A/-
Rv0840c/pip	(cc=0.4969)	info on Rv0840c/pip
Rv2640c/-	(cc=0.4873)	info on Rv2640c/-
Rv1453/-	(cc=0.4821)	info on Rv1453/-
Rv1514c/-	(cc=0.4701)	info on Rv1514c/-

Correlation of Rv2874/dipZ with Rv1514c/-

Normalized LFCs for Rv2874/dipZ:
(description and provenance of datasets)

	Rv2874/dipZ	Rv1514c/-
Fe_supp_jason_reseq	1.197	1.347
low_pH_jason_reseq	0.955	0.361
NO_jason_reseq	0.268	0.772
B6_jason_reseq	0.568	1.724
MHCII_jason_reseq	1.152	1.487
Isoniazid02	0.979	-0.621
Rifampicin4	0.097	-0.422
Ethambutol3	1.249	0.975
Meropenem3	0.264	-0.187
Vancomycin16	0.584	-0.414
Rv2680_day32	0.522	-0.803
H37Rv_KO_MarP	0.317	0.721
hypoxia_3wks	-0.335	0.199
hypoxia_6wks	-0.104	-0.455
glycerol	-0.556	0.989
cholesterol	-0.102	0.095
AJ	0.131	0.432
Bibs02	0.279	0.277
Bibs02c	0.156	0.593
BL6	-0.604	-0.088
BL6a	-0.521	-0.11
BXD01	-0.326	-0.534
BXD010	-0.2	-0.356
BXD011	0.246	-0.354
BXD03	-0.212	-0.697
BXD04	-0.325	-0.666
BXD05	-0.387	-0.175
BXD06	-0.079	-0.602
BXD07	-0.381	-0.117
BXD08	-0.253	-0.876
BXD09	-0.268	-0.272
CAST	0.067	-0.37
CCcont	-0.507	0.079
DS01	0.322	0.094
DS02	-0.175	0.25
DS04	0.264	1.03
DS0c	0.063	0.379
GP01	-0.951	0.014
GP02	-0.511	-1.422
GP0c	-0.174	-0.924
NOD	0.065	0.542
NZO	0.0	-0.199
PWK	-0.058	-0.054
H37Rv_KO_CtpC	-0.235	-1.154
H37Rv_KO_CtpD	0.775	0.067
H37Rv_KO_Rv1272	0.203	-0.759
H37Rv_KO_SugABC	0.809	0.077
H37Rv_KO_MbtN	-0.67	-0.465
Trans05	-0.039	0.243
macrophage_unactivated	-0.372	-0.486
IL1	-0.098	0.525
Rapamycin	0.193	0.187
Tcell	-0.108	-0.209
GMCSF	-0.174	-0.795
IFNab	-0.148	-0.193
IFNg	0.251	0.569
IFNg_GMCSF1	1.241	0.377
Rv1432_day32	-0.184	-0.902
Rv1565c_day32	-0.196	0.223
secA2_input	-0.218	-1.154
delta_Rv3594	-0.312	1.244
delta_Rv3717	-0.459	0.048
delta_Rv3811	-0.369	0.73
delta_Rv0954	0.689	0.049
PonA1	-0.665	0.629
EccD1_KO	0.253	1.394
EspI_KO	0.722	2.145
PE35_KO	1.152	1.852
PPE68_KO	0.704	2.755
glycerol2	0.042	0.593
lignocerate	0.091	0.675
oleate	-0.021	0.465
phosphatidylcholine	0.165	0.28
acetate	0.243	0.504
glucAc	-0.098	0.811
Rv0950ko	-0.476	-1.182
Rv1096ko	-0.911	-0.609
Rv3684ko	-0.773	-0.534
delta_otsA_trehalose	0.23	-0.139