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 Rv2818c/-:

update plot	correlation	link to info on gene
Rv2817c/-	(cc=0.6446)	info on Rv2817c/-
Rv2548/vapC19	(cc=0.6367)	info on Rv2548/vapC19
Rv3116/moeB2	(cc=0.6268)	info on Rv3116/moeB2
Rv1059/-	(cc=0.6254)	info on Rv1059/-
Rv0505c/serB1	(cc=0.6119)	info on Rv0505c/serB1
Rv1504c/-	(cc=0.6072)	info on Rv1504c/-
Rv3152/nuoH	(cc=0.6)	info on Rv3152/nuoH
Rv1526c/-	(cc=0.5784)	info on Rv1526c/-
Rv1521/fadD25	(cc=0.5748)	info on Rv1521/fadD25
Rv2336/-	(cc=0.5731)	info on Rv2336/-

Correlation of Rv2818c/- with Rv2817c/-

Normalized LFCs for Rv2818c/-:
(description and provenance of datasets)

	Rv2818c/-	Rv2817c/-
Fe_supp_jason_reseq	0.302	0.212
low_pH_jason_reseq	0.102	1.256
NO_jason_reseq	-0.213	0.092
B6_jason_reseq	-0.127	-0.04
MHCII_jason_reseq	0.454	0.067
Isoniazid02	-0.105	0.735
Rifampicin4	-0.563	0.244
Ethambutol3	-0.157	0.839
Meropenem3	0.02	0.259
Vancomycin16	0.313	0.0
Rv2680_day32	-0.316	-2.793
H37Rv_KO_MarP	-0.391	-0.467
hypoxia_3wks	0.215	0.255
hypoxia_6wks	0.403	0.0
glycerol	-0.363	-1.306
cholesterol	-0.229	-0.614
AJ	0.084	0.698
Bibs02	0.098	-0.566
Bibs02c	0.418	1.216
BL6	0.654	0.473
BL6a	1.184	1.73
BXD01	1.252	1.077
BXD010	1.154	1.274
BXD011	1.407	0.923
BXD03	1.319	1.691
BXD04	1.015	2.51
BXD05	1.503	0.901
BXD06	1.44	1.3
BXD07	1.573	0.739
BXD08	1.417	1.116
BXD09	1.177	1.26
CAST	0.596	-0.552
CCcont	1.109	0.821
DS01	0.246	-1.198
DS02	0.367	0.113
DS04	0.786	-0.533
DS0c	0.19	0.168
GP01	0.802	0.147
GP02	0.227	0.688
GP0c	1.034	0.194
NOD	0.197	-0.06
NZO	-0.152	0.678
PWK	-0.578	-0.222
H37Rv_KO_CtpC	1.643	1.087
H37Rv_KO_CtpD	2.194	1.509
H37Rv_KO_Rv1272	1.215	0.73
H37Rv_KO_SugABC	0.93	1.353
H37Rv_KO_MbtN	0.158	0.583
Trans05	0.593	-0.359
macrophage_unactivated	0.407	1.966
IL1	-0.11	0.492
Rapamycin	0.074	0.509
Tcell	0.381	0.248
GMCSF	1.323	0.702
IFNab	0.251	-0.181
IFNg	0.604	0.152
IFNg_GMCSF1	-0.277	0.0
Rv1432_day32	0.846	1.274
Rv1565c_day32	0.445	-0.461
secA2_input	-0.495	-0.989
delta_Rv3594	1.175	1.175
delta_Rv3717	0.828	0.315
delta_Rv3811	0.659	0.559
delta_Rv0954	0.028	1.215
PonA1	0.824	0.434
EccD1_KO	0.178	0.51
EspI_KO	0.767	0.371
PE35_KO	1.561	1.838
PPE68_KO	1.872	2.125
glycerol2	-0.122	0.235
lignocerate	0.038	0.175
oleate	-0.03	0.675
phosphatidylcholine	0.262	0.27
acetate	0.103	0.176
glucAc	-0.101	-0.029
Rv0950ko	-0.832	-0.54
Rv1096ko	-0.501	-1.743
Rv3684ko	-1.071	-1.759
delta_otsA_trehalose	0.459	-0.888